| Designing Videogames to Crowdsource Accelerometer Data Annotation for Activity Recognition Research. |
Ponnada A, Cooper S, Thapa-Chhetry B, Miller JA, John D, Intille S |
Proceedings of the ... Annual Symposium on Computer-Human Interaction in Play. ACM SIGCHI Annual Symposium on Computer-Human Interaction in Play |
31768505 |
Proc Annu Symp Comput Hum Interact Play |
2019 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/31768505 |
| Inferring and Comparing Game Difficulty Curves using Player-vs-Level Match Data. |
Sarkar A, Cooper S |
IEEE Conference on Games 2019 : London, United Kingdom, 20-23 August 2019 |
34355222 |
IEEE Conf Games 2019 (2019) |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/34355222 |
| Signaligner Pro: A Tool to Explore and Annotate Multi-day Raw Accelerometer Data. |
Ponnada A, Cooper S, Tang Q, Thapa-Chhetry B, Miller JA, John D, Intille S |
Proceedings of the ... IEEE International Conference on Pervasive Computing and Communications. IEEE International Conference on Pervasive Computing and Communications |
34458663 |
Proc IEEE Int Conf Pervasive Comput Commun |
2021 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/34458663 |
| Large Scale Semi-Automated Labeling of Routine Free-Text Clinical Records for Deep Learning. |
Trivedi HM, Panahiazar M, Liang A, Lituiev D, Chang P, Sohn JH, Chen YY, Franc BL, Joe B, Hadley D |
Journal of digital imaging |
30128778 |
J Digit Imaging |
2019 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/30128778 |
| Translational Radiomics: Defining the Strategy Pipeline and Considerations for Application-Part 1: From Methodology to Clinical Implementation. |
Shaikh F, Franc B, Allen E, Sala E, Awan O, Hendrata K, Halabi S, Mohiuddin S, Malik S, Hadley D, Shrestha R |
Journal of the American College of Radiology : JACR |
29366600 |
J Am Coll Radiol |
2018 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/29366600 |
| Meta-Analysis Reveals the Prognostic Relevance of Nuclear and Membrane-Associated Bile Acid Receptors in Gastric Cancer. |
Rohr M, Aljabban J, Rudeski-Rohr T, Lessans S, Nakkina SP, Hadley D, Zhu X, Altomare DA |
Clinical and translational gastroenterology |
33492921 |
Clin Transl Gastroenterol |
2021 Jan 12 |
https://www.ncbi.nlm.nih.gov/pubmed/33492921 |
| A Deep Learning Model to Predict a Diagnosis of Alzheimer Disease by Using (18)F-FDG PET of the Brain. |
Ding Y, Sohn JH, Kawczynski MG, Trivedi H, Harnish R, Jenkins NW, Lituiev D, Copeland TP, Aboian MS, Mari Aparici C, Behr SC, Flavell RR, Huang SY, Zalocusky KA, Nardo L, Seo Y, Hawkins RA, Hernandez Pampaloni M, Hadley D, Franc BL |
Radiology |
30398430 |
Radiology |
2019 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/30398430 |
| Systematic integration of biomedical knowledge prioritizes drugs for repurposing. |
Himmelstein DS, Lizee A, Hessler C, Brueggeman L, Chen SL, Hadley D, Green A, Khankhanian P, Baranzini SE |
eLife |
28936969 |
Elife |
2017 Sep 22 |
https://www.ncbi.nlm.nih.gov/pubmed/28936969 |
| Prediction of future healthcare expenses of patients from chest radiographs using deep learning: a pilot study. |
Sohn JH, Chen Y, Lituiev D, Yang J, Ordovas K, Hadley D, Vu TH, Franc BL, Seo Y |
Scientific reports |
35585177 |
Sci Rep |
2022 May 18 |
https://www.ncbi.nlm.nih.gov/pubmed/35585177 |
| Transcriptome changes in stages of non-alcoholic fatty liver disease. |
Aljabban J, Rohr M, Syed S, Khorfan K, Borkowski V, Aljabban H, Segal M, Mukhtar M, Mohammed M, Panahiazar M, Hadley D, Spengler R, Spengler E |
World journal of hepatology |
36158924 |
World J Hepatol |
2022 Jul 27 |
https://www.ncbi.nlm.nih.gov/pubmed/36158924 |
| Probing predilection to Crohn's disease and Crohn's disease flares: A crowd-sourced bioinformatics approach. |
Aljabban J, Rohr M, Borkowski VJ, Nemer M, Cohen E, Hashi N, Aljabban H, Boateng E, Syed S, Mohammed M, Mukhtar A, Hadley D, Panahiazar M |
Journal of pathology informatics |
36268056 |
J Pathol Inform |
2022 |
https://www.ncbi.nlm.nih.gov/pubmed/36268056 |
| Characterization of monoclonal gammopathy of undetermined significance progression to multiple myeloma through meta-analysis of GEO data. |
Aljabban J, Syed S, Syed S, Rohr M, Mukhtar M, Aljabban H, Cottini F, Mohammed M, Hughes T, Gonzalez T, Panahiazr M, Hadley D, Benson D |
Heliyon |
37539132 |
Heliyon |
2023 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/37539132 |
| Meta-Analysis illustrates possible role of lipopolysaccharide (LPS)-induced tissue injury in nasopharyngeal carcinoma (NPC) pathogenesis. |
Allen DZ, Aljabban J, Silverman D, McDermott S, Wanner RA, Rohr M, Hadley D, Panahiazar M |
PloS one |
34648530 |
PLoS One |
2021 |
https://www.ncbi.nlm.nih.gov/pubmed/34648530 |
| Investigating genetic drivers of dermatomyositis pathogenesis using meta-analysis. |
Aljabban J, Syed S, Syed S, Rohr M, Weisleder N, McElhanon KE, Hasan L, Safeer L, Hoffman K, Aljabban N, Mukhtar M, Adapa N, Allarakhia Z, Panahiazar M, Neuhaus I, Kim S, Hadley D, Jarjour W |
Heliyon |
33015383 |
Heliyon |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/33015383 |
| Metaanalysis Reveals Genetic Correlates of Osteoporosis Pathogenesis. |
Hasan LK, Aljabban J, Rohr M, Mukhtar M, Adapa N, Salim R, Aljabban N, Syed S, Syed S, Panahiazar M, Hadley D, Jarjour W |
The Journal of rheumatology |
33262303 |
J Rheumatol |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/33262303 |
| Precision annotation of digital samples in NCBI's gene expression omnibus. |
Hadley D, Pan J, El-Sayed O, Aljabban J, Aljabban I, Azad TD, Hadied MO, Raza S, Rayikanti BA, Chen B, Paik H, Aran D, Spatz J, Himmelstein D, Panahiazar M, Bhattacharya S, Sirota M, Musen MA, Butte AJ |
Scientific data |
28925997 |
Sci Data |
2017 Sep 19 |
https://www.ncbi.nlm.nih.gov/pubmed/28925997 |
| Translational Radiomics: Defining the Strategy Pipeline and Considerations for Application-Part 2: From Clinical Implementation to Enterprise. |
Shaikh F, Franc B, Allen E, Sala E, Awan O, Hendrata K, Halabi S, Mohiuddin S, Malik S, Hadley D, Shrestha R |
Journal of the American College of Radiology : JACR |
29366598 |
J Am Coll Radiol |
2018 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/29366598 |
| Automatic Labeling of Special Diagnostic Mammography Views from Images and DICOM Headers. |
Lituiev DS, Trivedi H, Panahiazar M, Norgeot B, Seo Y, Franc B, Harnish R, Kawczynski M, Hadley D |
Journal of digital imaging |
30465142 |
J Digit Imaging |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30465142 |
| Relating hepatocellular carcinoma tumor samples and cell lines using gene expression data in translational research. |
Chen B, Sirota M, Fan-Minogue H, Hadley D, Butte AJ |
BMC medical genomics |
26043652 |
BMC Med Genomics |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26043652 |
| A merged microarray meta-dataset for transcriptionally profiling colorectal neoplasm formation and progression. |
Rohr M, Beardsley J, Nakkina SP, Zhu X, Aljabban J, Hadley D, Altomare D |
Scientific data |
34381057 |
Sci Data |
2021 Aug 11 |
https://www.ncbi.nlm.nih.gov/pubmed/34381057 |
| Empowering study of breast cancer data with application of artificial intelligence technology: promises, challenges, and use cases. |
Panahiazar M, Chen N, Lituiev D, Hadley D |
Clinical & experimental metastasis |
34697751 |
Clin Exp Metastasis |
2022 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/34697751 |
| From cirrhosis to hepatocellular carcinoma: An investigation into hepatitis C viral oncogenesis. |
Aljabban J, Danis N, Gurakar M, Khorfan K, Aljabban N, Simsek C, Salhi H, Panahiazar M, Hadley D, Gurakar A, Saberi B |
Hepatology forum |
35949665 |
Hepatol Forum |
2020 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/35949665 |
| Dissecting novel mechanisms of hepatitis B virus related hepatocellular carcinoma using meta-analysis of public data. |
Aljabban J, Rohr M, Syed S, Cohen E, Hashi N, Syed S, Khorfan K, Aljabban H, Borkowski V, Segal M, Mukhtar M, Mohammed M, Boateng E, Nemer M, Panahiazar M, Hadley D, Jalil S, Mumtaz K |
World journal of gastrointestinal oncology |
36187396 |
World J Gastrointest Oncol |
2022 Sep 15 |
https://www.ncbi.nlm.nih.gov/pubmed/36187396 |
| Hybrid Automata Library: A flexible platform for hybrid modeling with real-time visualization. |
Bravo RR, Baratchart E, West J, Schenck RO, Miller AK, Gallaher J, Gatenbee CD, Basanta D, Robertson-Tessi M, Anderson ARA |
PLoS computational biology |
32155140 |
PLoS Comput Biol |
2020 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/32155140 |
| Phase i trials in melanoma: A framework to translate preclinical findings to the clinic. |
Kim E, Rebecca VW, Smalley KS, Anderson AR |
European journal of cancer (Oxford, England : 1990) |
27689717 |
Eur J Cancer |
2016 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/27689717 |
| Foldit Standalone: a video game-derived protein structure manipulation interface using Rosetta. |
Kleffner R, Flatten J, Leaver-Fay A, Baker D, Siegel JB, Khatib F, Cooper S |
Bioinformatics (Oxford, England) |
28481970 |
Bioinformatics |
2017 Sep 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28481970 |
| Collaborative Problem Solving in an Open-Ended Scientific Discovery Game. |
Bauer A, Popović Z |
Proceedings of the ACM on human-computer interaction |
30198019 |
Proc ACM Hum Comput Interact |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30198019 |
| De novo protein design by citizen scientists. |
Koepnick B, Flatten J, Husain T, Ford A, Silva DA, Bick MJ, Bauer A, Liu G, Ishida Y, Boykov A, Estep RD, Kleinfelter S, Nørgård-Solano T, Wei L, Players F, Montelione GT, DiMaio F, Popović Z, Khatib F, Cooper S, Baker D |
Nature |
31168091 |
Nature |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31168091 |
| Creating custom Foldit puzzles for teaching biochemistry. |
Dsilva L, Mittal S, Koepnick B, Flatten J, Cooper S, Horowitz S |
Biochemistry and molecular biology education : a bimonthly publication of the International Union of Biochemistry and Molecular Biology |
30638297 |
Biochem Mol Biol Educ |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30638297 |
| Building de novo cryo-electron microscopy structures collaboratively with citizen scientists. |
Khatib F, Desfosses A, Foldit Players, Koepnick B, Flatten J, Popović Z, Baker D, Cooper S, Gutsche I, Horowitz S |
PLoS biology |
31714936 |
PLoS Biol |
2019 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/31714936 |
| To Three or not to Three: Improving Human Computation Game Onboarding with a Three-Star System. |
Gaston J, Cooper S |
Proceedings of the SIGCHI conference on human factors in computing systems. CHI Conference |
29082386 |
Proc SIGCHI Conf Hum Factor Comput Syst |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29082386 |
| Expertise and Engagement: Re-Designing Citizen Science Games With Players' Minds in Mind. |
Miller JA, Narayan U, Hantsbarger M, Cooper S, El-Nasr MS |
FDG : proceedings of the International Conference on Foundations of Digital Games. International Conference on the Foundations of Digital Games |
31788674 |
FDG |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31788674 |
| Macromolecular modeling and design in Rosetta: recent methods and frameworks. |
Leman JK, Weitzner BD, Lewis SM, Adolf-Bryfogle J, Alam N, Alford RF, Aprahamian M, Baker D, Barlow KA, Barth P, Basanta B, Bender BJ, Blacklock K, Bonet J, Boyken SE, Bradley P, Bystroff C, Conway P, Cooper S, Correia BE, Coventry B, Das R, De Jong RM, DiMaio F, Dsilva L, Dunbrack R, Ford AS, Frenz B, Fu DY, Geniesse C, Goldschmidt L, Gowthaman R, Gray JJ, Gront D, Guffy S, Horowitz S, Huang PS, Huber T, Jacobs TM, Jeliazkov JR, Johnson DK, Kappel K, Karanicolas J, Khakzad H, Khar KR, Khare SD, Khatib F, Khramushin A, King IC, Kleffner R, Koepnick B, Kortemme T, Kuenze G, Kuhlman B, Kuroda D, Labonte JW, Lai JK, Lapidoth G, Leaver-Fay A, Lindert S, Linsky T, London N, Lubin JH, Lyskov S, Maguire J, Malmström L, Marcos E, Marcu O, Marze NA, Meiler J, Moretti R, Mulligan VK, Nerli S, Norn C, Ó'Conchúir S, Ollikainen N, Ovchinnikov S, Pacella MS, Pan X, Park H, Pavlovicz RE, Pethe M, Pierce BG, Pilla KB, Raveh B, Renfrew PD, Burman SSR, Rubenstein A, Sauer MF, Scheck A, Schief W, Schueler-Furman O, Sedan Y, Sevy AM, Sgourakis NG, Shi L, Siegel JB, Silva DA, Smith S, Song Y, Stein A, Szegedy M, Teets FD, Thyme SB, Wang RY, Watkins A, Zimmerman L, Bonneau R |
Nature methods |
32483333 |
Nat Methods |
2020 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/32483333 |
| Large-Scale Analysis of Visualization Options in a Citizen Science Game. |
Miller JA, Lee V, Cooper S, El-Nasr MS |
Proceedings of the ... Annual Symposium on Computer-Human Interaction in Play. ACM SIGCHI Annual Symposium on Computer-Human Interaction in Play |
33860290 |
Proc Annu Symp Comput Hum Interact Play |
2019 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/33860290 |
| Repurposing Citizen Science Games as Software Tools for Professional Scientists. |
Cooper S, Sterling ALR, Kleffner R, Silversmith WM, Siegel JB |
FDG : proceedings of the International Conference on Foundations of Digital Games. International Conference on the Foundations of Digital Games |
30465045 |
FDG |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30465045 |
| A Monte Carlo Approach to Skill-Based Automated Playtesting. |
Horn B, Miller JA, Smith G, Cooper S |
Proceedings. AAAI Artificial Intelligence and Interactive Digital Entertainment Conference |
30613687 |
Proc AAAI Artif Intell Interact Digit Enterain Conf |
2018 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30613687 |
| GraphSpace: stimulating interdisciplinary collaborations in network biology. |
Bharadwaj A, Singh DP, Ritz A, Tegge AN, Poirel CL, Kraikivski P, Adames N, Luther K, Kale SD, Peccoud J, Tyson JJ, Murali TM |
Bioinformatics (Oxford, England) |
28957495 |
Bioinformatics |
2017 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28957495 |
| Benchmarking algorithms for gene regulatory network inference from single-cell transcriptomic data. |
Pratapa A, Jalihal AP, Law JN, Bharadwaj A, Murali TM |
Nature methods |
31907445 |
Nat Methods |
2020 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/31907445 |
| Identifying reports of randomized controlled trials (RCTs) via a hybrid machine learning and crowdsourcing approach. |
Wallace BC, Noel-Storr A, Marshall IJ, Cohen AM, Smalheiser NR, Thomas J |
Journal of the American Medical Informatics Association : JAMIA |
28541493 |
J Am Med Inform Assoc |
2017 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28541493 |
| What Does the Evidence Say? Models to Help Make Sense of the Biomedical Literature. |
Wallace BC |
IJCAI : proceedings of the conference |
34025086 |
IJCAI (U S) |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/34025086 |
| An exploration of crowdsourcing citation screening for systematic reviews. |
Mortensen ML, Adam GP, Trikalinos TA, Kraska T, Wallace BC |
Research synthesis methods |
28677322 |
Res Synth Methods |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/28677322 |
| Aggregating and Predicting Sequence Labels from Crowd Annotations. |
Nguyen AT, Wallace BC, Li JJ, Nenkova A, Lease M |
Proceedings of the conference. Association for Computational Linguistics. Meeting |
29093611 |
Proc Conf Assoc Comput Linguist Meet |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29093611 |
| Enabling an Open Data Ecosystem for the Neurosciences. |
Wiener M, Sommer FT, Ives ZG, Poldrack RA, Litt B |
Neuron |
27883904 |
Neuron |
2016 Nov 23 |
https://www.ncbi.nlm.nih.gov/pubmed/27883904 |
| A Corpus with Multi-Level Annotations of Patients, Interventions and Outcomes to Support Language Processing for Medical Literature. |
Nye B, Jessy Li J, Patel R, Yang Y, Marshall IJ, Nenkova A, Wallace BC |
Proceedings of the conference. Association for Computational Linguistics. Meeting |
30305770 |
Proc Conf Assoc Comput Linguist Meet |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30305770 |
| Enabling an Open Data Ecosystem for the Neurosciences. |
Wiener M, Sommer FT, Ives ZG, Poldrack RA, Litt B |
Neuron |
27810004 |
Neuron |
2016 Nov 2 |
https://www.ncbi.nlm.nih.gov/pubmed/27810004 |
| Syntactic Patterns Improve Information Extraction for Medical Search. |
Patel R, Yang Y, Marshall I, Nenkova A, Wallace BC |
Proceedings of the conference. Association for Computational Linguistics. North American Chapter. Meeting |
30306147 |
Proc Conf |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/30306147 |
| Machine learning for identifying Randomized Controlled Trials: An evaluation and practitioner's guide. |
Marshall IJ, Noel-Storr A, Kuiper J, Thomas J, Wallace BC |
Research synthesis methods |
29314757 |
Res Synth Methods |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29314757 |
| Cyclic structure with cellular precision in a vertebrate sensorimotor neural circuit. |
Yang R, Vishwanathan A, Wu J, Kemnitz N, Ih D, Turner N, Lee K, Tartavull I, Silversmith WM, Jordan CS, David C, Bland D, Sterling A, Goldman MS, Aksay ERF, Seung HS, Eyewirers |
Current biology : CB |
37236180 |
Curr Biol |
2023 Jun 5 |
https://www.ncbi.nlm.nih.gov/pubmed/37236180 |
| Predicting modular functions and neural coding of behavior from a synaptic wiring diagram. |
Vishwanathan A, Sood A, Wu J, Ramirez AD, Yang R, Kemnitz N, Ih D, Turner N, Lee K, Tartavull I, Silversmith WM, Jordan CS, David C, Bland D, Sterling A, Seung HS, Goldman MS, Aksay ERF, Eyewirers |
Nature neuroscience |
39578573 |
Nat Neurosci |
2024 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/39578573 |
| Digital Museum of Retinal Ganglion Cells with Dense Anatomy and Physiology. |
Bae JA, Mu S, Kim JS, Turner NL, Tartavull I, Kemnitz N, Jordan CS, Norton AD, Silversmith WM, Prentki R, Sorek M, David C, Jones DL, Bland D, Sterling ALR, Park J, Briggman KL, Seung HS, Eyewirers |
Cell |
29775596 |
Cell |
2018 May 17 |
https://www.ncbi.nlm.nih.gov/pubmed/29775596 |
| A Crowdsourcing Framework for Medical Data Sets. |
Ye C, Coco J, Epishova A, Hajaj C, Bogardus H, Novak L, Denny J, Vorobeychik Y, Lasko T, Malin B, Fabbri D |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
29888085 |
AMIA Jt Summits Transl Sci Proc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29888085 |
| Extracting similar terms from multiple EMR-based semantic embeddings to support chart reviews. |
Ye C, Fabbri D |
Journal of biomedical informatics |
29793071 |
J Biomed Inform |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29793071 |
| Leveraging medical context to recommend semantically similar terms for chart reviews. |
Ye C, Malin BA, Fabbri D |
BMC medical informatics and decision making |
34922536 |
BMC Med Inform Decis Mak |
2021 Dec 18 |
https://www.ncbi.nlm.nih.gov/pubmed/34922536 |
| Crowdsourcing to delineate skin affected by chronic graft-vs-host disease. |
Tkaczyk ER, Coco JR, Wang J, Chen F, Ye C, Jagasia MH, Dawant BM, Fabbri D |
Skin research and technology : official journal of International Society for Bioengineering and the Skin (ISBS) [and] International Society for Digital Imaging of Skin (ISDIS) [and] International Society for Skin Imaging (ISSI) |
30786065 |
Skin Res Technol |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30786065 |
| T-ReCS: stable selection of dynamically formed groups of features with application to prediction of clinical outcomes. |
Huang GT, Tsamardinos I, Raghu V, Kaminski N, Benos PV |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
25592602 |
Pac Symp Biocomput |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/25592602 |
| A Hybrid Causal Search Algorithm for Latent Variable Models. |
Ogarrio JM, Spirtes P, Ramsey J |
JMLR workshop and conference proceedings |
28239434 |
JMLR Workshop Conf Proc |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28239434 |
| Causal Discovery from Temporally Aggregated Time Series. |
Gong M, Zhang K, Schölkopf B, Glymour C, Tao D |
Uncertainty in artificial intelligence : proceedings of the ... conference. Conference on Uncertainty in Artificial Intelligence |
29899680 |
Uncertain Artif Intell |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29899680 |
| Comparison of strategies for scalable causal discovery of latent variable models from mixed data. |
Raghu VK, Ramsey JD, Morris A, Manatakis DV, Sprites P, Chrysanthis PK, Glymour C, Benos PV |
International journal of data science and analytics |
30148202 |
Int J Data Sci Anal |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30148202 |
| Estimating bounds on causal effects in high-dimensional and possibly confounded systems. |
Malinsky D, Spirtes P |
International journal of approximate reasoning : official publication of the North American Fuzzy Information Processing Society |
29203954 |
Int J Approx Reason |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/29203954 |
| Unsupervised deep learning reveals prognostically relevant subtypes of glioblastoma. |
Young JD, Cai C, Lu X |
BMC bioinformatics |
28984190 |
BMC Bioinformatics |
2017 Oct 3 |
https://www.ncbi.nlm.nih.gov/pubmed/28984190 |
| Platform for Quantitative Evaluation of Spatial Intratumoral Heterogeneity in Multiplexed Fluorescence Images. |
Spagnolo DM, Al-Kofahi Y, Zhu P, Lezon TR, Gough A, Stern AM, Lee AV, Ginty F, Sarachan B, Taylor DL, Chennubhotla SC |
Cancer research |
29092944 |
Cancer Res |
2017 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29092944 |
| ARCHITECTURAL PATTERNS FOR DIFFERENTIAL DIAGNOSIS OF PROLIFERATIVE BREAST LESIONS FROM HISTOPATHOLOGICAL IMAGES. |
Nguyen L, Tosun AB, Fine JL, Taylor DL, Chennubhotla SC |
Proceedings. IEEE International Symposium on Biomedical Imaging |
28890755 |
Proc IEEE Int Symp Biomed Imaging |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/28890755 |
| Integrated Theory- and Data-driven Feature Selection in Gene Expression Data Analysis. |
Raghu VK, Ge X, Chrysanthis PK, Benos PV |
Proceedings. International Conference on Data Engineering |
29422764 |
Proc Int Conf Data Eng |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29422764 |
| A signal-based method for finding driver modules of breast cancer metastasis to the lung. |
Yan G, Chen V, Lu X, Lu S |
Scientific reports |
28855549 |
Sci Rep |
2017 Aug 30 |
https://www.ncbi.nlm.nih.gov/pubmed/28855549 |
| Fast Causal Inference with Non-Random Missingness by Test-Wise Deletion. |
Strobl EV, Visweswaran S, Spirtes PL |
International journal of data science and analytics |
31321289 |
Int J Data Sci Anal |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31321289 |
| Estimating feedforward and feedback effective connections from fMRI time series: Assessments of statistical methods. |
Sanchez-Romero R, Ramsey JD, Zhang K, Glymour MRK, Huang B, Glymour C |
Network neuroscience (Cambridge, Mass.) |
30793083 |
Netw Neurosci |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30793083 |
| From genome to phenome: Predicting multiple cancer phenotypes based on somatic genomic alterations via the genomic impact transformer. |
Tao Y, Cai C, Cohen WW, Lu X |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
31797588 |
Pac Symp Biocomput |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/31797588 |
| Transcriptional regulatory model of fibrosis progression in the human lung. |
McDonough JE, Ahangari F, Li Q, Jain S, Verleden SE, Herazo-Maya J, Vukmirovic M, DeIuliis G, Tzouvelekis A, Tanabe N, Chu F, Yan X, Verschakelen J, Homer RJ, Manatakis DV, Zhang J, Ding J, Maes K, De Sadeleer L, Vos R, Neyrinck A, Benos PV, Bar-Joseph Z, Tantin D, Hogg JC, Vanaudenaerde BM, Wuyts WA, Kaminski N |
JCI insight |
31600171 |
JCI Insight |
2019 Nov 14 |
https://www.ncbi.nlm.nih.gov/pubmed/31600171 |
| Mesochronal Structure Learning. |
Plis S, Danks D, Yang J |
Uncertainty in artificial intelligence : proceedings of the ... conference. Conference on Uncertainty in Artificial Intelligence |
27076793 |
Uncertain Artif Intell |
2015 Jul 12 |
https://www.ncbi.nlm.nih.gov/pubmed/27076793 |
| What Is Going on Inside the Arrows? Discovering the Hidden Springs in Causal Models. |
Murray-Watters A, Glymour C |
Philosophy of science |
27313331 |
Philos Sci |
2015 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/27313331 |
| Causal Clustering for 1-Factor Measurement Models. |
Kummerfeld E, Ramsey J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
27766182 |
KDD |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27766182 |
| MicroRNA miR-24-3p reduces DNA damage responses, apoptosis, and susceptibility to chronic obstructive pulmonary disease. |
Nouws J, Wan F, Finnemore E, Roque W, Kim SJ, Bazan I, Li CX, Skold CM, Dai Q, Yan X, Chioccioli M, Neumeister V, Britto CJ, Sweasy J, Bindra R, Wheelock ÅM, Gomez JL, Kaminski N, Lee PJ, Sauler M |
JCI insight |
33290275 |
JCI Insight |
2021 Jan 25 |
https://www.ncbi.nlm.nih.gov/pubmed/33290275 |
| Single-cell RNA-seq reveals ectopic and aberrant lung-resident cell populations in idiopathic pulmonary fibrosis. |
Adams TS, Schupp JC, Poli S, Ayaub EA, Neumark N, Ahangari F, Chu SG, Raby BA, DeIuliis G, Januszyk M, Duan Q, Arnett HA, Siddiqui A, Washko GR, Homer R, Yan X, Rosas IO, Kaminski N |
Science advances |
32832599 |
Sci Adv |
2020 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/32832599 |
| Learning to encode cellular responses to systematic perturbations with deep generative models. |
Xue Y, Ding MQ, Lu X |
NPJ systems biology and applications |
33159077 |
NPJ Syst Biol Appl |
2020 Nov 6 |
https://www.ncbi.nlm.nih.gov/pubmed/33159077 |
| Spatial domain analysis predicts risk of colorectal cancer recurrence and infers associated tumor microenvironment networks. |
Uttam S, Stern AM, Sevinsky CJ, Furman S, Pullara F, Spagnolo D, Nguyen L, Gough A, Ginty F, Lansing Taylor D, Chakra Chennubhotla S |
Nature communications |
32665557 |
Nat Commun |
2020 Jul 14 |
https://www.ncbi.nlm.nih.gov/pubmed/32665557 |
| Integrating data and knowledge to identify functional modules of genes: a multilayer approach. |
Liang L, Chen V, Zhu K, Fan X, Lu X, Lu S |
BMC bioinformatics |
31046665 |
BMC Bioinformatics |
2019 May 2 |
https://www.ncbi.nlm.nih.gov/pubmed/31046665 |
| Fibroblasts positive for meflin have anti-fibrotic properties in pulmonary fibrosis. |
Nakahara Y, Hashimoto N, Sakamoto K, Enomoto A, Adams TS, Yokoi T, Omote N, Poli S, Ando A, Wakahara K, Suzuki A, Inoue M, Hara A, Mizutani Y, Imaizumi K, Kawabe T, Rosas IO, Takahashi M, Kaminski N, Hasegawa Y |
The European respiratory journal |
34049947 |
Eur Respir J |
2021 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/34049947 |
| Causal Inference Gates Corticostriatal Learning. |
Dorfman HM, Tomov MS, Cheung B, Clarke D, Gershman SJ, Hughes BL |
The Journal of neuroscience : the official journal of the Society for Neuroscience |
34244363 |
J Neurosci |
2021 Aug 11 |
https://www.ncbi.nlm.nih.gov/pubmed/34244363 |
| An individualized causal framework for learning intercellular communication networks that define microenvironments of individual tumors. |
Chen X, Chen L, Kürten CHL, Jabbari F, Vujanovic L, Ding Y, Lu B, Lu K, Kulkarni A, Tabib T, Lafyatis R, Cooper GF, Ferris R, Lu X |
PLoS computational biology |
36548438 |
PLoS Comput Biol |
2022 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/36548438 |
| In situ functional cell phenotyping reveals microdomain networks in colorectal cancer recurrence. |
Furman SA, Stern AM, Uttam S, Taylor DL, Pullara F, Chennubhotla SC |
Cell reports methods |
34888541 |
Cell Rep Methods |
2021 Sep 27 |
https://www.ncbi.nlm.nih.gov/pubmed/34888541 |
| Circulating Mitochondrial DNA Is Associated With High Levels of Fatigue in Two Independent Sarcoidosis Cohorts. |
Fiorini V, Hu B, Sun Y, Yu S, McGovern J, Gandhi S, Woo S, Turcotte-Foster SJ, Pivarnik T, Khan Z, Adams T, Herzog EL, Kaminski N, Gulati M, Ryu C |
Chest |
37977267 |
Chest |
2024 May |
https://www.ncbi.nlm.nih.gov/pubmed/37977267 |
| Corrigendum to "Estimating bounds on causal effects in high-dimensional and possibly confounded systems" [Int. J. Approx. Reason. 88 (2017) 371-384]. |
Malinsky D, Spirtes P |
International journal of approximate reasoning : official publication of the North American Fuzzy Information Processing Society |
40842818 |
Int J Approx Reason |
2025 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/40842818 |
| The center for causal discovery of biomedical knowledge from big data. |
Cooper GF, Bahar I, Becich MJ, Benos PV, Berg J, Espino JU, Glymour C, Jacobson RC, Kienholz M, Lee AV, Lu X, Scheines R, Center for Causal Discovery team |
Journal of the American Medical Informatics Association : JAMIA |
26138794 |
J Am Med Inform Assoc |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26138794 |
| Evolutionary signatures amongst disease genes permit novel methods for gene prioritization and construction of informative gene-based networks. |
Priedigkeit N, Wolfe N, Clark NL |
PLoS genetics |
25679399 |
PLoS Genet |
2015 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/25679399 |
| A novel method of using Deep Belief Networks and genetic perturbation data to search for yeast signaling pathways. |
Lu S, Fan X, Chen L, Lu X |
PloS one |
30208101 |
PLoS One |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30208101 |
| A Constraint Optimization Approach to Causal Discovery from Subsampled Time Series Data. |
Hyttinen A, Plis S, Järvisalo M, Eberhardt F, Danks D |
International journal of approximate reasoning : official publication of the North American Fuzzy Information Processing Society |
29755201 |
Int J Approx Reason |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/29755201 |
| Ancient convergent losses of Paraoxonase 1 yield potential risks for modern marine mammals. |
Meyer WK, Jamison J, Richter R, Woods SE, Partha R, Kowalczyk A, Kronk C, Chikina M, Bonde RK, Crocker DE, Gaspard J, Lanyon JM, Marsillach J, Furlong CE, Clark NL |
Science (New York, N.Y.) |
30093596 |
Science |
2018 Aug 10 |
https://www.ncbi.nlm.nih.gov/pubmed/30093596 |
| Pathway-level information extractor (PLIER) for gene expression data. |
Mao W, Zaslavsky E, Hartmann BM, Sealfon SC, Chikina M |
Nature methods |
31249421 |
Nat Methods |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31249421 |
| Behind Distribution Shift: Mining Driving Forces of Changes and Causal Arrows. |
Huang B, Zhang K, Zhang J, Sanchez-Romero R, Glymour C, Schölkopf B |
Proceedings. IEEE International Conference on Data Mining |
31068766 |
Proc IEEE Int Conf Data Min |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/31068766 |
| Multi-domain Causal Structure Learning in Linear Systems. |
Ghassami A, Kiyavash N, Huang B, Zhang K |
Advances in neural information processing systems |
30971863 |
Adv Neural Inf Process Syst |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30971863 |
| Systematic discovery of the functional impact of somatic genome alterations in individual tumors through tumor-specific causal inference. |
Cai C, Cooper GF, Lu KN, Ma X, Xu S, Zhao Z, Chen X, Xue Y, Lee AV, Clark N, Chen V, Lu S, Chen L, Yu L, Hochheiser HS, Jiang X, Wang QJ, Lu X |
PLoS computational biology |
31276486 |
PLoS Comput Biol |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31276486 |
| Toward Sensor-Based Sleep Monitoring with Electrodermal Activity Measures. |
Romine W, Banerjee T, Goodman G |
Sensors (Basel, Switzerland) |
30909430 |
Sensors (Basel) |
2019 Mar 22 |
https://www.ncbi.nlm.nih.gov/pubmed/30909430 |
| A regulatory circuit of miR-125b/miR-20b and Wnt signalling controls glioblastoma phenotypes through FZD6-modulated pathways. |
Huang T, Alvarez AA, Pangeni RP, Horbinski CM, Lu S, Kim SH, James CD, J Raizer J, A Kessler J, Brenann CW, Sulman EP, Finocchiaro G, Tan M, Nishikawa R, Lu X, Nakano I, Hu B, Cheng SY |
Nature communications |
27698350 |
Nat Commun |
2016 Oct 4 |
https://www.ncbi.nlm.nih.gov/pubmed/27698350 |
| Precision Oncology beyond Targeted Therapy: Combining Omics Data with Machine Learning Matches the Majority of Cancer Cells to Effective Therapeutics. |
Ding MQ, Chen L, Cooper GF, Young JD, Lu X |
Molecular cancer research : MCR |
29133589 |
Mol Cancer Res |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29133589 |
| Subterranean mammals show convergent regression in ocular genes and enhancers, along with adaptation to tunneling. |
Partha R, Chauhan BK, Ferreira Z, Robinson JD, Lathrop K, Nischal KK, Chikina M, Clark NL |
eLife |
29035697 |
Elife |
2017 Oct 16 |
https://www.ncbi.nlm.nih.gov/pubmed/29035697 |
| PEBP1 Wardens Ferroptosis by Enabling Lipoxygenase Generation of Lipid Death Signals. |
Wenzel SE, Tyurina YY, Zhao J, St Croix CM, Dar HH, Mao G, Tyurin VA, Anthonymuthu TS, Kapralov AA, Amoscato AA, Mikulska-Ruminska K, Shrivastava IH, Kenny EM, Yang Q, Rosenbaum JC, Sparvero LJ, Emlet DR, Wen X, Minami Y, Qu F, Watkins SC, Holman TR, VanDemark AP, Kellum JA, Bahar I, Bayır H, Kagan VE |
Cell |
29053969 |
Cell |
2017 Oct 19 |
https://www.ncbi.nlm.nih.gov/pubmed/29053969 |
| Finding Pure Sub-Models for Improved Differentiation of Bi-Factor and Second-Order Models. |
Yang R, Spirtes P, Scheines R, Reise SP, Mansoff M |
Structural equation modeling : a multidisciplinary journal |
29230085 |
Struct Equ Modeling |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29230085 |
| Binary Classifier Calibration using an Ensemble of Near Isotonic Regression Models. |
Naeini MP, Cooper GF |
Proceedings. IEEE International Conference on Data Mining |
28316511 |
Proc IEEE Int Conf Data Min |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/28316511 |
| Spatial Statistics for Segmenting Histological Structures in H&E Stained Tissue Images. |
Nguyen L, Tosun AB, Fine JL, Lee AV, Taylor DL, Chennubhotla SC |
IEEE transactions on medical imaging |
28328502 |
IEEE Trans Med Imaging |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28328502 |
| A million variables and more: the Fast Greedy Equivalence Search algorithm for learning high-dimensional graphical causal models, with an application to functional magnetic resonance images. |
Ramsey J, Glymour M, Sanchez-Romero R, Glymour C |
International journal of data science and analytics |
28393106 |
Int J Data Sci Anal |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28393106 |
| Signal-Oriented Pathway Analyses Reveal a Signaling Complex as a Synthetic Lethal Target for p53 Mutations. |
Lu S, Cai C, Yan G, Zhou Z, Wan Y, Chen V, Chen L, Cooper GF, Obeid LM, Hannun YA, Lee AV, Lu X |
Cancer research |
27758891 |
Cancer Res |
2016 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27758891 |
| Regulation of XIAP Turnover Reveals a Role for USP11 in Promotion of Tumorigenesis. |
Zhou Z, Luo A, Shrivastava I, He M, Huang Y, Bahar I, Liu Z, Wan Y |
EBioMedicine |
28040451 |
EBioMedicine |
2017 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/28040451 |
| BEM: Mining Coregulation Patterns in Transcriptomics via Boolean Matrix Factorization. |
Liang L, Zhu K, Lu S |
Bioinformatics (Oxford, England) |
31913438 |
Bioinformatics |
2020 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31913438 |
| Learning the Structure of a Nonstationary Vector Autoregression. |
Malinsky D, Spirtes P |
Proceedings of machine learning research |
31803862 |
Proc Mach Learn Res |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31803862 |
| Domain Generalization via Multidomain Discriminant Analysis. |
Hu S, Zhang K, Chen Z, Chan L |
Uncertainty in artificial intelligence : proceedings of the ... conference. Conference on Uncertainty in Artificial Intelligence |
31555066 |
Uncertain Artif Intell |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31555066 |
| Learning High-dimensional Directed Acyclic Graphs with Mixed Data-types. |
Andrews B, Ramsey J, Cooper GF |
Proceedings of machine learning research |
31453569 |
Proc Mach Learn Res |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31453569 |
| Low-Dimensional Density Ratio Estimation for Covariate Shift Correction. |
Stojanov P, Gong M, Carbonell JG, Zhang K |
Proceedings of machine learning research |
31497776 |
Proc Mach Learn Res |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31497776 |
| Causal Discovery and Forecasting in Nonstationary Environments with State-Space Models. |
Huang B, Zhang K, Gong M, Glymour C |
Proceedings of machine learning research |
31497778 |
Proc Mach Learn Res |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31497778 |
| Nanoporous metal-polymer composite membranes for organics separations and catalysis. |
Detisch MJ, John Balk T, Bezold M, Bhattacharyya D |
Journal of materials research |
37539433 |
J Mater Res |
2020 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/37539433 |
| DataRemix: a universal data transformation for optimal inference from gene expression datasets. |
Mao W, Rahimikollu J, Hausler R, Chikina M |
Bioinformatics (Oxford, England) |
32821903 |
Bioinformatics |
2021 May 17 |
https://www.ncbi.nlm.nih.gov/pubmed/32821903 |
| EIF3H Orchestrates Hippo Pathway-Mediated Oncogenesis via Catalytic Control of YAP Stability. |
Zhou Z, Zhou H, Ponzoni L, Luo A, Zhu R, He M, Huang Y, Guan KL, Bahar I, Liu Z, Wan Y |
Cancer research |
32269044 |
Cancer Res |
2020 Jun 15 |
https://www.ncbi.nlm.nih.gov/pubmed/32269044 |
| Small airways pathology in idiopathic pulmonary fibrosis: a retrospective cohort study. |
Verleden SE, Tanabe N, McDonough JE, Vasilescu DM, Xu F, Wuyts WA, Piloni D, De Sadeleer L, Willems S, Mai C, Hostens J, Cooper JD, Verbeken EK, Verschakelen J, Galban CJ, Van Raemdonck DE, Colby TV, Decramer M, Verleden GM, Kaminski N, Hackett TL, Vanaudenaerde BM, Hogg JC |
The Lancet. Respiratory medicine |
32061334 |
Lancet Respir Med |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/32061334 |
| Toll-like Receptor 9 Inhibition Mitigates Fibroproliferative Responses in Translational Models of Pulmonary Fibrosis. |
Trujillo G, Regueiro-Ren A, Liu C, Hu B, Sun Y, Ahangari F, Fiorini V, Ishikawa G, Al Jumaily K, Khoury J, McGovern J, Lee CJ, Peng XY, Pivarnik T, Sun H, Walia A, Woo S, Yu S, Antin-Ozerkis DE, Sauler M, Kaminski N, Herzog EL, Ryu C |
American journal of respiratory and critical care medicine |
39189851 |
Am J Respir Crit Care Med |
2025 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/39189851 |
| Structural complexity and molecular heterogeneity of a butterfly ejaculate reflect a complex history of selection. |
Meslin C, Cherwin TS, Plakke MS, Hill J, Small BS, Goetz BJ, Wheat CW, Morehouse NI, Clark NL |
Proceedings of the National Academy of Sciences of the United States of America |
28630352 |
Proc Natl Acad Sci U S A |
2017 Jul 3 |
https://www.ncbi.nlm.nih.gov/pubmed/28630352 |
| Chromosomal dynamics predicted by an elastic network model explains genome-wide accessibility and long-range couplings. |
Sauerwald N, Zhang S, Kingsford C, Bahar I |
Nucleic acids research |
28334818 |
Nucleic Acids Res |
2017 Apr 20 |
https://www.ncbi.nlm.nih.gov/pubmed/28334818 |
| Binary Classifier Calibration Using an Ensemble of Linear Trend Estimation. |
Naeini MP, Cooper GF |
Proceedings of the ... SIAM International Conference on Data Mining. SIAM International Conference on Data Mining |
28357158 |
Proc SIAM Int Conf Data Min |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/28357158 |
| An algorithm for direct causal learning of influences on patient outcomes. |
Rathnam C, Lee S, Jiang X |
Artificial intelligence in medicine |
28363452 |
Artif Intell Med |
2017 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/28363452 |
| Causal Discovery from Nonstationary/Heterogeneous Data: Skeleton Estimation and Orientation Determination. |
Zhang K, Huang B, Zhang J, Glymour C, Schölkopf B |
IJCAI : proceedings of the conference |
28966540 |
IJCAI (U S) |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28966540 |
| Causal Discovery from Subsampled Time Series Data by Constraint Optimization. |
Hyttinen A, Plis S, Järvisalo M, Eberhardt F, Danks D |
JMLR workshop and conference proceedings |
28203316 |
JMLR Workshop Conf Proc |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28203316 |
| Biologically Relevant Heterogeneity: Metrics and Practical Insights. |
Gough A, Stern AM, Maier J, Lezon T, Shun TY, Chennubhotla C, Schurdak ME, Haney SA, Taylor DL |
SLAS discovery : advancing life sciences R & D |
28231035 |
SLAS Discov |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28231035 |
| Domain Adaptation with Conditional Transferable Components. |
Gong M, Zhang K, Liu T, Tao D, Glymour C, Schölkopf B |
JMLR workshop and conference proceedings |
28239433 |
JMLR Workshop Conf Proc |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28239433 |
| Pointwise mutual information quantifies intratumor heterogeneity in tissue sections labeled with multiple fluorescent biomarkers. |
Spagnolo DM, Gyanchandani R, Al-Kofahi Y, Stern AM, Lezon TR, Gough A, Meyer DE, Ginty F, Sarachan B, Fine J, Lee AV, Taylor DL, Chennubhotla SC |
Journal of pathology informatics |
27994939 |
J Pathol Inform |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27994939 |
| Shared dynamics of LeuT superfamily members and allosteric differentiation by structural irregularities and multimerization. |
Ponzoni L, Zhang S, Cheng MH, Bahar I |
Philosophical transactions of the Royal Society of London. Series B, Biological sciences |
29735731 |
Philos Trans R Soc Lond B Biol Sci |
2018 Jun 19 |
https://www.ncbi.nlm.nih.gov/pubmed/29735731 |
| Discovery of Causal Models that Contain Latent Variables through Bayesian Scoring of Independence Constraints. |
Jabbari F, Ramsey J, Spirtes P, Cooper G |
Machine learning and knowledge discovery in databases : European Conference, ECML PKDD ... : proceedings. ECML PKDD (Conference) |
29520396 |
Mach Learn Knowl Discov Databases |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/29520396 |
| Mixed graphical models for integrative causal analysis with application to chronic lung disease diagnosis and prognosis. |
Sedgewick AJ, Buschur K, Shi I, Ramsey JD, Raghu VK, Manatakis DV, Zhang Y, Bon J, Chandra D, Karoleski C, Sciurba FC, Spirtes P, Glymour C, Benos PV |
Bioinformatics (Oxford, England) |
30192904 |
Bioinformatics |
2019 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30192904 |
| Learning causality and causality-related learning: some recent progress. |
Zhang K, Schölkopf B, Spirtes P, Glymour C |
National science review |
30034911 |
Natl Sci Rev |
2018 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/30034911 |
| Scoring Bayesian Networks of Mixed Variables. |
Andrews B, Ramsey J, Cooper GF |
International journal of data science and analytics |
30140730 |
Int J Data Sci Anal |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30140730 |
| Generalized Score Functions for Causal Discovery. |
Huang B, Zhang K, Lin Y, Schölkopf B, Glymour C |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
30191079 |
KDD |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30191079 |
| Binary Classifier Calibration Using an Ensemble of Piecewise Linear Regression Models. |
Naeini MP, Cooper GF |
Knowledge and information systems |
29606784 |
Knowl Inf Syst |
2018 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/29606784 |
| Modeling Dynamic Missingness of Implicit Feedback for Recommendation. |
Wang M, Gong M, Zheng X, Zhang K |
Advances in neural information processing systems |
30971864 |
Adv Neural Inf Process Syst |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30971864 |
| Markov Boundary Discovery with Ridge Regularized Linear Models. |
Strobl EV, Visweswaran S |
Journal of causal inference |
27170915 |
J Causal Inference |
2016 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/27170915 |
| Learning Disentangled Semantic Representation for Domain Adaptation. |
Cai R, Li Z, Wei P, Qiao J, Zhang K, Hao Z |
IJCAI : proceedings of the conference |
31555039 |
IJCAI (U S) |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31555039 |
| Data-Driven Approach to Multiple-Source Domain Adaptation. |
Stojanov P, Gong M, Carbonell JG, Zhang K |
Proceedings of machine learning research |
31497777 |
Proc Mach Learn Res |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31497777 |
| Tumour-specific Causal Inference Discovers Distinct Disease Mechanisms Underlying Cancer Subtypes. |
Xue Y, Cooper G, Cai C, Lu S, Hu B, Ma X, Lu X |
Scientific reports |
31519988 |
Sci Rep |
2019 Sep 13 |
https://www.ncbi.nlm.nih.gov/pubmed/31519988 |
| ERC analysis: web-based inference of gene function via evolutionary rate covariation. |
Wolfe NW, Clark NL |
Bioinformatics (Oxford, England) |
26243019 |
Bioinformatics |
2015 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26243019 |
| Identifying Driver Genomic Alterations in Cancers by Searching Minimum-Weight, Mutually Exclusive Sets. |
Lu S, Lu KN, Cheng SY, Hu B, Ma X, Nystrom N, Lu X |
PLoS computational biology |
26317392 |
PLoS Comput Biol |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26317392 |
| CellCODE: a robust latent variable approach to differential expression analysis for heterogeneous cell populations. |
Chikina M, Zaslavsky E, Sealfon SC |
Bioinformatics (Oxford, England) |
25583121 |
Bioinformatics |
2015 May 15 |
https://www.ncbi.nlm.nih.gov/pubmed/25583121 |
| Pan-mammalian analysis of molecular constraints underlying extended lifespan. |
Kowalczyk A, Partha R, Clark NL, Chikina M |
eLife |
32043462 |
Elife |
2020 Feb 11 |
https://www.ncbi.nlm.nih.gov/pubmed/32043462 |
| Personalized Modeling for Prediction with Decision-Path Models. |
Visweswaran S, Ferreira A, Ribeiro GA, Oliveira AC, Cooper GF |
PloS one |
26098570 |
PLoS One |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26098570 |
| Adaptability of protein structures to enable functional interactions and evolutionary implications. |
Haliloglu T, Bahar I |
Current opinion in structural biology |
26254902 |
Curr Opin Struct Biol |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/26254902 |
| The Budding Yeast Ubiquitin Protease Ubp7 Is a Novel Component Involved in S Phase Progression. |
Böhm S, Szakal B, Herken BW, Sullivan MR, Mihalevic MJ, Kabbinavar FF, Branzei D, Clark NL, Bernstein KA |
The Journal of biological chemistry |
26740628 |
J Biol Chem |
2016 Feb 26 |
https://www.ncbi.nlm.nih.gov/pubmed/26740628 |
| Causal discovery and inference: concepts and recent methodological advances. |
Spirtes P, Zhang K |
Applied informatics |
27195202 |
Appl Inform (Berl) |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27195202 |
| A new method for estimating the probability of causal relationships from observational data: Application to the study of the short-term effects of air pollution on cardiovascular and respiratory disease. |
Andrews B, Wongchokprasitti C, Visweswaran S, Lakhani CM, Patel CJ, Cooper GF |
Artificial intelligence in medicine |
37100513 |
Artif Intell Med |
2023 May |
https://www.ncbi.nlm.nih.gov/pubmed/37100513 |
| Saracatinib, a Selective Src Kinase Inhibitor, Blocks Fibrotic Responses in Preclinical Models of Pulmonary Fibrosis. |
Ahangari F, Becker C, Foster DG, Chioccioli M, Nelson M, Beke K, Wang X, Justet A, Adams T, Readhead B, Meador C, Correll K, Lili LN, Roybal HM, Rose KA, Ding S, Barnthaler T, Briones N, DeIuliis G, Schupp JC, Li Q, Omote N, Aschner Y, Sharma L, Kopf KW, Magnusson B, Hicks R, Backmark A, Dela Cruz CS, Rosas I, Cousens LP, Dudley JT, Kaminski N, Downey GP |
American journal of respiratory and critical care medicine |
35998281 |
Am J Respir Crit Care Med |
2022 Dec 15 |
https://www.ncbi.nlm.nih.gov/pubmed/35998281 |
| Complementary evolution of coding and noncoding sequence underlies mammalian hairlessness. |
Kowalczyk A, Chikina M, Clark N |
eLife |
36342464 |
Elife |
2022 Nov 7 |
https://www.ncbi.nlm.nih.gov/pubmed/36342464 |
| Estimating Causal Effects with Ancestral Graph Markov Models. |
Malinsky D, Spirtes P |
JMLR workshop and conference proceedings |
28217244 |
JMLR Workshop Conf Proc |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28217244 |
| Measurement Error and Causal Discovery. |
Scheines R, Ramsey J |
CEUR workshop proceedings. |
28280453 |
CEUR Workshop Proc |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28280453 |
| Revealing common disease mechanisms shared by tumors of different tissues of origin through semantic representation of genomic alterations and topic modeling. |
Chen V, Paisley J, Lu X |
BMC genomics |
28361690 |
BMC Genomics |
2017 Mar 14 |
https://www.ncbi.nlm.nih.gov/pubmed/28361690 |
| Binary Classifier Calibration Using a Bayesian Non-Parametric Approach. |
Naeini MP, Cooper GF, Hauskrecht M |
Proceedings of the ... SIAM International Conference on Data Mining. SIAM International Conference on Data Mining |
26613068 |
Proc SIAM Int Conf Data Min |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26613068 |
| Interplay between arginine methylation and ubiquitylation regulates KLF4-mediated genome stability and carcinogenesis. |
Hu D, Gur M, Zhou Z, Gamper A, Hung MC, Fujita N, Lan L, Bahar I, Wan Y |
Nature communications |
26420673 |
Nat Commun |
2015 Sep 30 |
https://www.ncbi.nlm.nih.gov/pubmed/26420673 |
| Trans-species learning of cellular signaling systems with bimodal deep belief networks. |
Chen L, Cai C, Chen V, Lu X |
Bioinformatics (Oxford, England) |
25995230 |
Bioinformatics |
2015 Sep 15 |
https://www.ncbi.nlm.nih.gov/pubmed/25995230 |
| An Assessment of Imaging Informatics for Precision Medicine in Cancer. |
Chennubhotla C, Clarke LP, Fedorov A, Foran D, Harris G, Helton E, Nordstrom R, Prior F, Rubin D, Saltz JH, Shalley E, Sharma A |
Yearbook of medical informatics |
29063549 |
Yearb Med Inform |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29063549 |
| Structural dynamics is a determinant of the functional significance of missense variants. |
Ponzoni L, Bahar I |
Proceedings of the National Academy of Sciences of the United States of America |
29610305 |
Proc Natl Acad Sci U S A |
2018 Apr 17 |
https://www.ncbi.nlm.nih.gov/pubmed/29610305 |
| An exact algorithm for finding cancer driver somatic genome alterations: the weighted mutually exclusive maximum set cover problem. |
Lu S, Mandava G, Yan G, Lu X |
Algorithms for molecular biology : AMB |
27148394 |
Algorithms Mol Biol |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27148394 |
| Rate-Agnostic (Causal) Structure Learning. |
Plis S, Danks D, Freeman C, Calhoun V |
Advances in neural information processing systems |
27182188 |
Adv Neural Inf Process Syst |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27182188 |
| Hundreds of Genes Experienced Convergent Shifts in Selective Pressure in Marine Mammals. |
Chikina M, Robinson JD, Clark NL |
Molecular biology and evolution |
27329977 |
Mol Biol Evol |
2016 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/27329977 |
| Learning mixed graphical models with separate sparsity parameters and stability-based model selection. |
Sedgewick AJ, Shi I, Donovan RM, Benos PV |
BMC bioinformatics |
27294886 |
BMC Bioinformatics |
2016 Jun 6 |
https://www.ncbi.nlm.nih.gov/pubmed/27294886 |
| Discovering functional impacts of miRNAs in cancers using a causal deep learning model. |
Chen L, Lu X |
BMC medical genomics |
30598118 |
BMC Med Genomics |
2018 Dec 31 |
https://www.ncbi.nlm.nih.gov/pubmed/30598118 |
| Inferring causation from time series in Earth system sciences. |
Runge J, Bathiany S, Bollt E, Camps-Valls G, Coumou D, Deyle E, Glymour C, Kretschmer M, Mahecha MD, Muñoz-Marí J, van Nes EH, Peters J, Quax R, Reichstein M, Scheffer M, Schölkopf B, Spirtes P, Sugihara G, Sun J, Zhang K, Zscheischler J |
Nature communications |
31201306 |
Nat Commun |
2019 Jun 14 |
https://www.ncbi.nlm.nih.gov/pubmed/31201306 |
| Review of Causal Discovery Methods Based on Graphical Models. |
Glymour C, Zhang K, Spirtes P |
Frontiers in genetics |
31214249 |
Front Genet |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31214249 |
| Amalgamating evidence of dynamics. |
Danks D, Plis S |
Synthese |
31527987 |
Synthese |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31527987 |
| Instance-Specific Bayesian Network Structure Learning. |
Jabbari F, Visweswaran S, Cooper GF |
Proceedings of machine learning research |
30775723 |
Proc Mach Learn Res |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/30775723 |
| Causal Discovery from Discrete Data using Hidden Compact Representation. |
Cai R, Qiao J, Zhang K, Zhang Z, Hao Z |
Advances in neural information processing systems |
30956519 |
Adv Neural Inf Process Syst |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30956519 |
| Patient-Specific Modeling with Personalized Decision Paths. |
Johnson A, Cooper GF, Visweswaran S |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
33936434 |
AMIA Annu Symp Proc |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/33936434 |
| Plasma collagen neoepitopes are associated with multiorgan disease in the ACCESS and GRADS sarcoidosis cohorts. |
Sand JMB, Jessen H, Leeming DJ, Yu S, Lee CJ, Hu B, Sun Y, Adams T, Pivarnik T, Liu A, Woo S, McGovern JR, Fiorini V, Saber T, Higuero-Sevilla JP, Gulati M, Kaminski N, Damsky W, Shaw AC, Mohanty S, Goobie G, Zhang Y, Herzog EL, Ryu C |
Thorax |
39117421 |
Thorax |
2024 Nov 14 |
https://www.ncbi.nlm.nih.gov/pubmed/39117421 |
| Unmixing for Causal Inference: Thoughts on McCaffrey and Danks. |
Zhang K, Glymour MRK |
The British journal for the philosophy of science |
33376450 |
Br J Philos Sci |
2020 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/33376450 |
| Toward better benchmarking: challenge-based methods assessment in cancer genomics. |
Boutros PC, Margolin AA, Stuart JM, Califano A, Stolovitzky G |
Genome biology |
25314947 |
Genome Biol |
2014 Sep 17 |
https://www.ncbi.nlm.nih.gov/pubmed/25314947 |
| Integrative analysis of 111 reference human epigenomes. |
Roadmap Epigenomics Consortium, Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, Kheradpour P, Zhang Z, Wang J, Ziller MJ, Amin V, Whitaker JW, Schultz MD, Ward LD, Sarkar A, Quon G, Sandstrom RS, Eaton ML, Wu YC, Pfenning AR, Wang X, Claussnitzer M, Liu Y, Coarfa C, Harris RA, Shoresh N, Epstein CB, Gjoneska E, Leung D, Xie W, Hawkins RD, Lister R, Hong C, Gascard P, Mungall AJ, Moore R, Chuah E, Tam A, Canfield TK, Hansen RS, Kaul R, Sabo PJ, Bansal MS, Carles A, Dixon JR, Farh KH, Feizi S, Karlic R, Kim AR, Kulkarni A, Li D, Lowdon R, Elliott G, Mercer TR, Neph SJ, Onuchic V, Polak P, Rajagopal N, Ray P, Sallari RC, Siebenthall KT, Sinnott-Armstrong NA, Stevens M, Thurman RE, Wu J, Zhang B, Zhou X, Beaudet AE, Boyer LA, De Jager PL, Farnham PJ, Fisher SJ, Haussler D, Jones SJ, Li W, Marra MA, McManus MT, Sunyaev S, Thomson JA, Tlsty TD, Tsai LH, Wang W, Waterland RA, Zhang MQ, Chadwick LH, Bernstein BE, Costello JF, Ecker JR, Hirst M, Meissner A, Milosavljevic A, Ren B, Stamatoyannopoulos JA, Wang T, Kellis M |
Nature |
25693563 |
Nature |
2015 Feb 19 |
https://www.ncbi.nlm.nih.gov/pubmed/25693563 |
| Single-cell transcriptome analysis reveals dynamic changes in lncRNA expression during reprogramming. |
Kim DH, Marinov GK, Pepke S, Singer ZS, He P, Williams B, Schroth GP, Elowitz MB, Wold BJ |
Cell stem cell |
25575081 |
Cell Stem Cell |
2015 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/25575081 |
| Improved data analysis for the MinION nanopore sequencer. |
Jain M, Fiddes IT, Miga KH, Olsen HE, Paten B, Akeson M |
Nature methods |
25686389 |
Nat Methods |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/25686389 |
| Molecular Profiling Reveals Biologically Discrete Subsets and Pathways of Progression in Diffuse Glioma. |
Ceccarelli M, Barthel FP, Malta TM, Sabedot TS, Salama SR, Murray BA, Morozova O, Newton Y, Radenbaugh A, Pagnotta SM, Anjum S, Wang J, Manyam G, Zoppoli P, Ling S, Rao AA, Grifford M, Cherniack AD, Zhang H, Poisson L, Carlotti CG Jr, Tirapelli DP, Rao A, Mikkelsen T, Lau CC, Yung WK, Rabadan R, Huse J, Brat DJ, Lehman NL, Barnholtz-Sloan JS, Zheng S, Hess K, Rao G, Meyerson M, Beroukhim R, Cooper L, Akbani R, Wrensch M, Haussler D, Aldape KD, Laird PW, Gutmann DH, TCGA Research Network, Noushmehr H, Iavarone A, Verhaak RG |
Cell |
26824661 |
Cell |
2016 Jan 28 |
https://www.ncbi.nlm.nih.gov/pubmed/26824661 |
| Mapping DNA methylation with high-throughput nanopore sequencing. |
Rand AC, Jain M, Eizenga JM, Musselman-Brown A, Olsen HE, Akeson M, Paten B |
Nature methods |
28218897 |
Nat Methods |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/28218897 |
| Addressing Beacon re-identification attacks: quantification and mitigation of privacy risks. |
Raisaro JL, Tramèr F, Ji Z, Bu D, Zhao Y, Carey K, Lloyd D, Sofia H, Baker D, Flicek P, Shringarpure S, Bustamante C, Wang S, Jiang X, Ohno-Machado L, Tang H, Wang X, Hubaux JP |
Journal of the American Medical Informatics Association : JAMIA |
28339683 |
J Am Med Inform Assoc |
2017 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28339683 |
| The Monarch Initiative: an integrative data and analytic platform connecting phenotypes to genotypes across species. |
Mungall CJ, McMurry JA, Köhler S, Balhoff JP, Borromeo C, Brush M, Carbon S, Conlin T, Dunn N, Engelstad M, Foster E, Gourdine JP, Jacobsen JO, Keith D, Laraway B, Lewis SE, NguyenXuan J, Shefchek K, Vasilevsky N, Yuan Z, Washington N, Hochheiser H, Groza T, Smedley D, Robinson PN, Haendel MA |
Nucleic acids research |
27899636 |
Nucleic Acids Res |
2017 Jan 4 |
https://www.ncbi.nlm.nih.gov/pubmed/27899636 |
| The UCSC Genome Browser database: 2017 update. |
Tyner C, Barber GP, Casper J, Clawson H, Diekhans M, Eisenhart C, Fischer CM, Gibson D, Gonzalez JN, Guruvadoo L, Haeussler M, Heitner S, Hinrichs AS, Karolchik D, Lee BT, Lee CM, Nejad P, Raney BJ, Rosenbloom KR, Speir ML, Villarreal C, Vivian J, Zweig AS, Haussler D, Kuhn RM, Kent WJ |
Nucleic acids research |
27899642 |
Nucleic Acids Res |
2017 Jan 4 |
https://www.ncbi.nlm.nih.gov/pubmed/27899642 |
| High-resolution comparative analysis of great ape genomes. |
Kronenberg ZN, Fiddes IT, Gordon D, Murali S, Cantsilieris S, Meyerson OS, Underwood JG, Nelson BJ, Chaisson MJP, Dougherty ML, Munson KM, Hastie AR, Diekhans M, Hormozdiari F, Lorusso N, Hoekzema K, Qiu R, Clark K, Raja A, Welch AE, Sorensen M, Baker C, Fulton RS, Armstrong J, Graves-Lindsay TA, Denli AM, Hoppe ER, Hsieh P, Hill CM, Pang AWC, Lee J, Lam ET, Dutcher SK, Gage FH, Warren WC, Shendure J, Haussler D, Schneider VA, Cao H, Ventura M, Wilson RK, Paten B, Pollen A, Eichler EE |
Science (New York, N.Y.) |
29880660 |
Science |
2018 Jun 8 |
https://www.ncbi.nlm.nih.gov/pubmed/29880660 |
| Comparative Annotation Toolkit (CAT)-simultaneous clade and personal genome annotation. |
Fiddes IT, Armstrong J, Diekhans M, Nachtweide S, Kronenberg ZN, Underwood JG, Gordon D, Earl D, Keane T, Eichler EE, Haussler D, Stanke M, Paten B |
Genome research |
29884752 |
Genome Res |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29884752 |
| Variation graph toolkit improves read mapping by representing genetic variation in the reference. |
Garrison E, Sirén J, Novak AM, Hickey G, Eizenga JM, Dawson ET, Jones W, Garg S, Markello C, Lin MF, Paten B, Durbin R |
Nature biotechnology |
30125266 |
Nat Biotechnol |
2018 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/30125266 |
| MinION Analysis and Reference Consortium: Phase 1 data release and analysis. |
Ip CLC, Loose M, Tyson JR, de Cesare M, Brown BL, Jain M, Leggett RM, Eccles DA, Zalunin V, Urban JM, Piazza P, Bowden RJ, Paten B, Mwaigwisya S, Batty EM, Simpson JT, Snutch TP, Birney E, Buck D, Goodwin S, Jansen HJ, O'Grady J, Olsen HE, MinION Analysis and Reference Consortium |
F1000Research |
26834992 |
F1000Res |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26834992 |
| Identifying cis-mediators for trans-eQTLs across many human tissues using genomic mediation analysis. |
Yang F, Wang J, GTEx Consortium, Pierce BL, Chen LS |
Genome research |
29021290 |
Genome Res |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/29021290 |
| Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework. |
Glusman G, Rose PW, Prlić A, Dougherty J, Duarte JM, Hoffman AS, Barton GJ, Bendixen E, Bergquist T, Bock C, Brunk E, Buljan M, Burley SK, Cai B, Carter H, Gao J, Godzik A, Heuer M, Hicks M, Hrabe T, Karchin R, Leman JK, Lane L, Masica DL, Mooney SD, Moult J, Omenn GS, Pearl F, Pejaver V, Reynolds SM, Rokem A, Schwede T, Song S, Tilgner H, Valasatava Y, Zhang Y, Deutsch EW |
Genome medicine |
29254494 |
Genome Med |
2017 Dec 18 |
https://www.ncbi.nlm.nih.gov/pubmed/29254494 |
| Molecularly targeted drug combinations demonstrate selective effectiveness for myeloid- and lymphoid-derived hematologic malignancies. |
Kurtz SE, Eide CA, Kaempf A, Khanna V, Savage SL, Rofelty A, English I, Ho H, Pandya R, Bolosky WJ, Poon H, Deininger MW, Collins R, Swords RT, Watts J, Pollyea DA, Medeiros BC, Traer E, Tognon CE, Mori M, Druker BJ, Tyner JW |
Proceedings of the National Academy of Sciences of the United States of America |
28784769 |
Proc Natl Acad Sci U S A |
2017 Sep 5 |
https://www.ncbi.nlm.nih.gov/pubmed/28784769 |
| Algorithmic Advances and Applications from RECOMB 2017. |
|
Cell systems |
28957652 |
Cell Syst |
2017 Sep 27 |
https://www.ncbi.nlm.nih.gov/pubmed/28957652 |
| KAT2A coupled with the α-KGDH complex acts as a histone H3 succinyltransferase. |
Wang Y, Guo YR, Liu K, Yin Z, Liu R, Xia Y, Tan L, Yang P, Lee JH, Li XJ, Hawke D, Zheng Y, Qian X, Lyu J, He J, Xing D, Tao YJ, Lu Z |
Nature |
29211711 |
Nature |
2017 Dec 14 |
https://www.ncbi.nlm.nih.gov/pubmed/29211711 |
| A harmonized meta-knowledgebase of clinical interpretations of somatic genomic variants in cancer. |
Wagner AH, Walsh B, Mayfield G, Tamborero D, Sonkin D, Krysiak K, Deu-Pons J, Duren RP, Gao J, McMurry J, Patterson S, Del Vecchio Fitz C, Pitel BA, Sezerman OU, Ellrott K, Warner JL, Rieke DT, Aittokallio T, Cerami E, Ritter DI, Schriml LM, Freimuth RR, Haendel M, Raca G, Madhavan S, Baudis M, Beckmann JS, Dienstmann R, Chakravarty D, Li XS, Mockus S, Elemento O, Schultz N, Lopez-Bigas N, Lawler M, Goecks J, Griffith M, Griffith OL, Margolin AA, Variant Interpretation for Cancer Consortium |
Nature genetics |
32246132 |
Nat Genet |
2020 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/32246132 |
| Mango: Exploratory Data Analysis for Large-Scale Sequencing Datasets. |
Morrow AK, He GZ, Nothaft FA, Tu ET, Paschall J, Yosef N, Joseph AD |
Cell systems |
31812694 |
Cell Syst |
2019 Dec 18 |
https://www.ncbi.nlm.nih.gov/pubmed/31812694 |
| Facilitating a culture of responsible and effective sharing of cancer genome data. |
Siu LL, Lawler M, Haussler D, Knoppers BM, Lewin J, Vis DJ, Liao RG, Andre F, Banks I, Barrett JC, Caldas C, Camargo AA, Fitzgerald RC, Mao M, Mattison JE, Pao W, Sellers WR, Sullivan P, Teh BT, Ward RL, ZenKlusen JC, Sawyers CL, Voest EE |
Nature medicine |
27149219 |
Nat Med |
2016 May 5 |
https://www.ncbi.nlm.nih.gov/pubmed/27149219 |
| Therapeutically Targetable ALK Mutations in Leukemia. |
Maxson JE, Davare MA, Luty SB, Eide CA, Chang BH, Loriaux MM, Tognon CE, Bottomly D, Wilmot B, McWeeney SK, Druker BJ, Tyner JW |
Cancer research |
26032424 |
Cancer Res |
2015 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26032424 |
| Pangenome Graphs. |
Eizenga JM, Novak AM, Sibbesen JA, Heumos S, Ghaffaari A, Hickey G, Chang X, Seaman JD, Rounthwaite R, Ebler J, Rautiainen M, Garg S, Paten B, Marschall T, Sirén J, Garrison E |
Annual review of genomics and human genetics |
32453966 |
Annu Rev Genomics Hum Genet |
2020 Aug 31 |
https://www.ncbi.nlm.nih.gov/pubmed/32453966 |
| Sequence diversity analyses of an improved rhesus macaque genome enhance its biomedical utility. |
Warren WC, Harris RA, Haukness M, Fiddes IT, Murali SC, Fernandes J, Dishuck PC, Storer JM, Raveendran M, Hillier LW, Porubsky D, Mao Y, Gordon D, Vollger MR, Lewis AP, Munson KM, DeVogelaere E, Armstrong J, Diekhans M, Walker JA, Tomlinson C, Graves-Lindsay TA, Kremitzki M, Salama SR, Audano PA, Escalona M, Maurer NW, Antonacci F, Mercuri L, Maggiolini FAM, Catacchio CR, Underwood JG, O'Connor DH, Sanders AD, Korbel JO, Ferguson B, Kubisch HM, Picker L, Kalin NH, Rosene D, Levine J, Abbott DH, Gray SB, Sanchez MM, Kovacs-Balint ZA, Kemnitz JW, Thomasy SM, Roberts JA, Kinnally EL, Capitanio JP, Skene JHP, Platt M, Cole SA, Green RE, Ventura M, Wiseman RW, Paten B, Batzer MA, Rogers J, Eichler EE |
Science (New York, N.Y.) |
33335035 |
Science |
2020 Dec 18 |
https://www.ncbi.nlm.nih.gov/pubmed/33335035 |
| Distance indexing and seed clustering in sequence graphs. |
Chang X, Eizenga J, Novak AM, Sirén J, Paten B |
Bioinformatics (Oxford, England) |
32657356 |
Bioinformatics |
2020 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32657356 |
| Gaussian mixture model-based unsupervised nucleotide modification number detection using nanopore-sequencing readouts. |
Ding H, Bailey AD, Jain M, Olsen H, Paten B |
Bioinformatics (Oxford, England) |
32597959 |
Bioinformatics |
2020 Dec 8 |
https://www.ncbi.nlm.nih.gov/pubmed/32597959 |
| Federated analysis of BRCA1 and BRCA2 variation in a Japanese cohort. |
Casaletto J, Parsons M, Markello C, Iwasaki Y, Momozawa Y, Spurdle AB, Cline M |
Cell genomics |
35373174 |
Cell Genom |
2022 Mar 9 |
https://www.ncbi.nlm.nih.gov/pubmed/35373174 |
| An average-case sublinear forward algorithm for the haploid Li and Stephens model. |
Rosen YM, Paten BJ |
Algorithms for molecular biology : AMB |
30988694 |
Algorithms Mol Biol |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30988694 |
| A high-quality bonobo genome refines the analysis of hominid evolution. |
Mao Y, Catacchio CR, Hillier LW, Porubsky D, Li R, Sulovari A, Fernandes JD, Montinaro F, Gordon DS, Storer JM, Haukness M, Fiddes IT, Murali SC, Dishuck PC, Hsieh P, Harvey WT, Audano PA, Mercuri L, Piccolo I, Antonacci F, Munson KM, Lewis AP, Baker C, Underwood JG, Hoekzema K, Huang TH, Sorensen M, Walker JA, Hoffman J, Thibaud-Nissen F, Salama SR, Pang AWC, Lee J, Hastie AR, Paten B, Batzer MA, Diekhans M, Ventura M, Eichler EE |
Nature |
33953399 |
Nature |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/33953399 |
| Clinical significance and biology of circulating tumor DNA in high-risk early-stage HER2-negative breast cancer receiving neoadjuvant chemotherapy. |
Magbanua MJM, Brown Swigart L, Ahmed Z, Sayaman RW, Renner D, Kalashnikova E, Hirst GL, Yau C, Wolf DM, Li W, Delson AL, Asare S, Liu MC, Albain K, Chien AJ, Forero-Torres A, Isaacs C, Nanda R, Tripathy D, Rodriguez A, Sethi H, Aleshin A, Rabinowitz M, Perlmutter J, Symmans WF, Yee D, Hylton NM, Esserman LJ, DeMichele AM, Rugo HS, van 't Veer LJ |
Cancer cell |
37146605 |
Cancer Cell |
2023 Jun 12 |
https://www.ncbi.nlm.nih.gov/pubmed/37146605 |
| Redefining breast cancer subtypes to guide treatment prioritization and maximize response: Predictive biomarkers across 10 cancer therapies. |
Wolf DM, Yau C, Wulfkuhle J, Brown-Swigart L, Gallagher RI, Lee PRE, Zhu Z, Magbanua MJ, Sayaman R, O'Grady N, Basu A, Delson A, Coppé JP, Lu R, Braun J, I-SPY2 Investigators, Asare SM, Sit L, Matthews JB, Perlmutter J, Hylton N, Liu MC, Pohlmann P, Symmans WF, Rugo HS, Isaacs C, DeMichele AM, Yee D, Berry DA, Pusztai L, Petricoin EF, Hirst GL, Esserman LJ, van 't Veer LJ |
Cancer cell |
35623341 |
Cancer Cell |
2022 Jun 13 |
https://www.ncbi.nlm.nih.gov/pubmed/35623341 |
| Potential for bias in studies on efficacy of prophylactic surgery for BRCA1 and BRCA2 mutation. |
Klaren HM, van't Veer LJ, van Leeuwen FE, Rookus MA |
Journal of the National Cancer Institute |
12837830 |
J Natl Cancer Inst |
2003 Jul 2 |
https://www.ncbi.nlm.nih.gov/pubmed/12837830 |
| Database of genomic biomarkers for cancer drugs and clinical targetability in solid tumors. |
Dienstmann R, Jang IS, Bot B, Friend S, Guinney J |
Cancer discovery |
25656898 |
Cancer Discov |
2015 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/25656898 |
| The Cancer Genomics Hub (CGHub): overcoming cancer through the power of torrential data. |
Wilks C, Cline MS, Weiler E, Diehkans M, Craft B, Martin C, Murphy D, Pierce H, Black J, Nelson D, Litzinger B, Hatton T, Maltbie L, Ainsworth M, Allen P, Rosewood L, Mitchell E, Smith B, Warner J, Groboske J, Telc H, Wilson D, Sanford B, Schmidt H, Haussler D, Maltbie D |
Database : the journal of biological databases and curation |
25267794 |
Database (Oxford) |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/25267794 |
| Building a pan-genome reference for a population. |
Nguyen N, Hickey G, Zerbino DR, Raney B, Earl D, Armstrong J, Kent WJ, Haussler D, Paten B |
Journal of computational biology : a journal of computational molecular cell biology |
25565268 |
J Comput Biol |
2015 May |
https://www.ncbi.nlm.nih.gov/pubmed/25565268 |
| Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas. |
Cancer Genome Atlas Research Network, Brat DJ, Verhaak RG, Aldape KD, Yung WK, Salama SR, Cooper LA, Rheinbay E, Miller CR, Vitucci M, Morozova O, Robertson AG, Noushmehr H, Laird PW, Cherniack AD, Akbani R, Huse JT, Ciriello G, Poisson LM, Barnholtz-Sloan JS, Berger MS, Brennan C, Colen RR, Colman H, Flanders AE, Giannini C, Grifford M, Iavarone A, Jain R, Joseph I, Kim J, Kasaian K, Mikkelsen T, Murray BA, O'Neill BP, Pachter L, Parsons DW, Sougnez C, Sulman EP, Vandenberg SR, Van Meir EG, von Deimling A, Zhang H, Crain D, Lau K, Mallery D, Morris S, Paulauskis J, Penny R, Shelton T, Sherman M, Yena P, Black A, Bowen J, Dicostanzo K, Gastier-Foster J, Leraas KM, Lichtenberg TM, Pierson CR, Ramirez NC, Taylor C, Weaver S, Wise L, Zmuda E, Davidsen T, Demchok JA, Eley G, Ferguson ML, Hutter CM, Mills Shaw KR, Ozenberger BA, Sheth M, Sofia HJ, Tarnuzzer R, Wang Z, Yang L, Zenklusen JC, Ayala B, Baboud J, Chudamani S, Jensen MA, Liu J, Pihl T, Raman R, Wan Y, Wu Y, Ally A, Auman JT, Balasundaram M, Balu S, Baylin SB, Beroukhim R, Bootwalla MS, Bowlby R, Bristow CA, Brooks D, Butterfield Y, Carlsen R, Carter S, Chin L, Chu A, Chuah E, Cibulskis K, Clarke A, Coetzee SG, Dhalla N, Fennell T, Fisher S, Gabriel S, Getz G, Gibbs R, Guin R, Hadjipanayis A, Hayes DN, Hinoue T, Hoadley K, Holt RA, Hoyle AP, Jefferys SR, Jones S, Jones CD, Kucherlapati R, Lai PH, Lander E, Lee S, Lichtenstein L, Ma Y, Maglinte DT, Mahadeshwar HS, Marra MA, Mayo M, Meng S, Meyerson ML, Mieczkowski PA, Moore RA, Mose LE, Mungall AJ, Pantazi A, Parfenov M, Park PJ, Parker JS, Perou CM, Protopopov A, Ren X, Roach J, Sabedot TS, Schein J, Schumacher SE, Seidman JG, Seth S, Shen H, Simons JV, Sipahimalani P, Soloway MG, Song X, Sun H, Tabak B, Tam A, Tan D, Tang J, Thiessen N, Triche T Jr, Van Den Berg DJ, Veluvolu U, Waring S, Weisenberger DJ, Wilkerson MD, Wong T, Wu J, Xi L, Xu AW, Yang L, Zack TI, Zhang J, Aksoy BA, Arachchi H, Benz C, Bernard B, Carlin D, Cho J, DiCara D, Frazer S, Fuller GN, Gao J, Gehlenborg N, Haussler D, Heiman DI, Iype L, Jacobsen A, Ju Z, Katzman S, Kim H, Knijnenburg T, Kreisberg RB, Lawrence MS, Lee W, Leinonen K, Lin P, Ling S, Liu W, Liu Y, Liu Y, Lu Y, Mills G, Ng S, Noble MS, Paull E, Rao A, Reynolds S, Saksena G, Sanborn Z, Sander C, Schultz N, Senbabaoglu Y, Shen R, Shmulevich I, Sinha R, Stuart J, Sumer SO, Sun Y, Tasman N, Taylor BS, Voet D, Weinhold N, Weinstein JN, Yang D, Yoshihara K, Zheng S, Zhang W, Zou L, Abel T, Sadeghi S, Cohen ML, Eschbacher J, Hattab EM, Raghunathan A, Schniederjan MJ, Aziz D, Barnett G, Barrett W, Bigner DD, Boice L, Brewer C, Calatozzolo C, Campos B, Carlotti CG Jr, Chan TA, Cuppini L, Curley E, Cuzzubbo S, Devine K, DiMeco F, Duell R, Elder JB, Fehrenbach A, Finocchiaro G, Friedman W, Fulop J, Gardner J, Hermes B, Herold-Mende C, Jungk C, Kendler A, Lehman NL, Lipp E, Liu O, Mandt R, McGraw M, Mclendon R, McPherson C, Neder L, Nguyen P, Noss A, Nunziata R, Ostrom QT, Palmer C, Perin A, Pollo B, Potapov A, Potapova O, Rathmell WK, Rotin D, Scarpace L, Schilero C, Senecal K, Shimmel K, Shurkhay V, Sifri S, Singh R, Sloan AE, Smolenski K, Staugaitis SM, Steele R, Thorne L, Tirapelli DP, Unterberg A, Vallurupalli M, Wang Y, Warnick R, Williams F, Wolinsky Y, Bell S, Rosenberg M, Stewart C, Huang F, Grimsby JL, Radenbaugh AJ, Zhang J |
The New England journal of medicine |
26061751 |
N Engl J Med |
2015 Jun 25 |
https://www.ncbi.nlm.nih.gov/pubmed/26061751 |
| Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection. |
Ewing AD, Houlahan KE, Hu Y, Ellrott K, Caloian C, Yamaguchi TN, Bare JC, P'ng C, Waggott D, Sabelnykova VY, ICGC-TCGA DREAM Somatic Mutation Calling Challenge participants, Kellen MR, Norman TC, Haussler D, Friend SH, Stolovitzky G, Margolin AA, Stuart JM, Boutros PC |
Nature methods |
25984700 |
Nat Methods |
2015 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/25984700 |
| The Genome 10K Project: a way forward. |
Koepfli KP, Paten B, Genome 10K Community of Scientists, O'Brien SJ |
Annual review of animal biosciences |
25689317 |
Annu Rev Anim Biosci |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/25689317 |
| Integrated design, execution, and analysis of arrayed and pooled CRISPR genome-editing experiments. |
Canver MC, Haeussler M, Bauer DE, Orkin SH, Sanjana NE, Shalem O, Yuan GC, Zhang F, Concordet JP, Pinello L |
Nature protocols |
29651054 |
Nat Protoc |
2018 May |
https://www.ncbi.nlm.nih.gov/pubmed/29651054 |
| Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci. |
Lilue J, Doran AG, Fiddes IT, Abrudan M, Armstrong J, Bennett R, Chow W, Collins J, Collins S, Czechanski A, Danecek P, Diekhans M, Dolle DD, Dunn M, Durbin R, Earl D, Ferguson-Smith A, Flicek P, Flint J, Frankish A, Fu B, Gerstein M, Gilbert J, Goodstadt L, Harrow J, Howe K, Ibarra-Soria X, Kolmogorov M, Lelliott CJ, Logan DW, Loveland J, Mathews CE, Mott R, Muir P, Nachtweide S, Navarro FCP, Odom DT, Park N, Pelan S, Pham SK, Quail M, Reinholdt L, Romoth L, Shirley L, Sisu C, Sjoberg-Herrera M, Stanke M, Steward C, Thomas M, Threadgold G, Thybert D, Torrance J, Wong K, Wood J, Yalcin B, Yang F, Adams DJ, Paten B, Keane TM |
Nature genetics |
30275530 |
Nat Genet |
2018 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30275530 |
| The Matchmaker Exchange: a platform for rare disease gene discovery. |
Philippakis AA, Azzariti DR, Beltran S, Brookes AJ, Brownstein CA, Brudno M, Brunner HG, Buske OJ, Carey K, Doll C, Dumitriu S, Dyke SO, den Dunnen JT, Firth HV, Gibbs RA, Girdea M, Gonzalez M, Haendel MA, Hamosh A, Holm IA, Huang L, Hurles ME, Hutton B, Krier JB, Misyura A, Mungall CJ, Paschall J, Paten B, Robinson PN, Schiettecatte F, Sobreira NL, Swaminathan GJ, Taschner PE, Terry SF, Washington NL, Züchner S, Boycott KM, Rehm HL |
Human mutation |
26295439 |
Hum Mutat |
2015 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/26295439 |
| GenAp: a distributed SQL interface for genomic data. |
Kozanitis C, Patterson DA |
BMC bioinformatics |
26846841 |
BMC Bioinformatics |
2016 Feb 4 |
https://www.ncbi.nlm.nih.gov/pubmed/26846841 |
| Federated discovery and sharing of genomic data using Beacons. |
Fiume M, Cupak M, Keenan S, Rambla J, de la Torre S, Dyke SOM, Brookes AJ, Carey K, Lloyd D, Goodhand P, Haeussler M, Baudis M, Stockinger H, Dolman L, Lappalainen I, Törnroos J, Linden M, Spalding JD, Ur-Rehman S, Page A, Flicek P, Sherry S, Haussler D, Varma S, Saunders G, Scollen S |
Nature biotechnology |
30833764 |
Nat Biotechnol |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30833764 |
| Assessment of blind predictions of the clinical significance of BRCA1 and BRCA2 variants. |
Cline MS, Babbi G, Bonache S, Cao Y, Casadio R, de la Cruz X, Díez O, Gutiérrez-Enríquez S, Katsonis P, Lai C, Lichtarge O, Martelli PL, Mishne G, Moles-Fernández A, Montalban G, Mooney SD, O'Conner R, Ootes L, Özkan S, Padilla N, Pagel KA, Pejaver V, Radivojac P, Riera C, Savojardo C, Shen Y, Sun Y, Topper S, Parsons MT, Spurdle AB, Goldgar DE, ENIGMA Consortium |
Human mutation |
31294896 |
Hum Mutat |
2019 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/31294896 |
| The Oxford Nanopore MinION: delivery of nanopore sequencing to the genomics community. |
Jain M, Olsen HE, Paten B, Akeson M |
Genome biology |
27887629 |
Genome Biol |
2016 Nov 25 |
https://www.ncbi.nlm.nih.gov/pubmed/27887629 |
| The UCSC Genome Browser database: 2016 update. |
Speir ML, Zweig AS, Rosenbloom KR, Raney BJ, Paten B, Nejad P, Lee BT, Learned K, Karolchik D, Hinrichs AS, Heitner S, Harte RA, Haeussler M, Guruvadoo L, Fujita PA, Eisenhart C, Diekhans M, Clawson H, Casper J, Barber GP, Haussler D, Kuhn RM, Kent WJ |
Nucleic acids research |
26590259 |
Nucleic Acids Res |
2016 Jan 4 |
https://www.ncbi.nlm.nih.gov/pubmed/26590259 |
| Genome Editing with CRISPR-Cas9: Can It Get Any Better? |
Haeussler M, Concordet JP |
Journal of genetics and genomics = Yi chuan xue bao |
27210042 |
J Genet Genomics |
2016 May 20 |
https://www.ncbi.nlm.nih.gov/pubmed/27210042 |
| A Crowdsourcing Approach to Developing and Assessing Prediction Algorithms for AML Prognosis. |
Noren DP, Long BL, Norel R, Rrhissorrakrai K, Hess K, Hu CW, Bisberg AJ, Schultz A, Engquist E, Liu L, Lin X, Chen GM, Xie H, Hunter GA, Boutros PC, Stepanov O, DREAM 9 AML-OPC Consortium, Norman T, Friend SH, Stolovitzky G, Kornblau S, Qutub AA |
PLoS computational biology |
27351836 |
PLoS Comput Biol |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/27351836 |
| Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines. |
Ellrott K, Bailey MH, Saksena G, Covington KR, Kandoth C, Stewart C, Hess J, Ma S, Chiotti KE, McLellan M, Sofia HJ, Hutter C, Getz G, Wheeler D, Ding L, MC3 Working Group, Cancer Genome Atlas Research Network |
Cell systems |
29596782 |
Cell Syst |
2018 Mar 28 |
https://www.ncbi.nlm.nih.gov/pubmed/29596782 |
| A 3-way hybrid approach to generate a new high-quality chimpanzee reference genome (Pan_tro_3.0). |
Kuderna LFK, Tomlinson C, Hillier LW, Tran A, Fiddes IT, Armstrong J, Laayouni H, Gordon D, Huddleston J, Garcia Perez R, Povolotskaya I, Serres Armero A, Gómez Garrido J, Ho D, Ribeca P, Alioto T, Green RE, Paten B, Navarro A, Betranpetit J, Herrero J, Eichler EE, Sharp AJ, Feuk L, Warren WC, Marques-Bonet T |
GigaScience |
29092041 |
Gigascience |
2017 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29092041 |
| Modelling haplotypes with respect to reference cohort variation graphs. |
Rosen Y, Eizenga J, Paten B |
Bioinformatics (Oxford, England) |
28881971 |
Bioinformatics |
2017 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/28881971 |
| MinION-based long-read sequencing and assembly extends the Caenorhabditis elegans reference genome. |
Tyson JR, O'Neil NJ, Jain M, Olsen HE, Hieter P, Snutch TP |
Genome research |
29273626 |
Genome Res |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29273626 |
| DNA repair deficiency biomarkers and the 70-gene ultra-high risk signature as predictors of veliparib/carboplatin response in the I-SPY 2 breast cancer trial. |
Wolf DM, Yau C, Sanil A, Glas A, Petricoin E, Wulfkuhle J, Severson TM, Linn S, Brown-Swigart L, Hirst G, Buxton M, DeMichele A, Hylton N, Symmans F, Yee D, Paoloni M, Esserman L, Berry D, Rugo H, Olopade O, van 't Veer L |
NPJ breast cancer |
28948212 |
NPJ Breast Cancer |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28948212 |
| Genome graphs and the evolution of genome inference. |
Paten B, Novak AM, Eizenga JM, Garrison E |
Genome research |
28360232 |
Genome Res |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/28360232 |
| Toil enables reproducible, open source, big biomedical data analyses. |
Vivian J, Rao AA, Nothaft FA, Ketchum C, Armstrong J, Novak A, Pfeil J, Narkizian J, Deran AD, Musselman-Brown A, Schmidt H, Amstutz P, Craft B, Goldman M, Rosenbloom K, Cline M, O'Connor B, Hanna M, Birger C, Kent WJ, Patterson DA, Joseph AD, Zhu J, Zaranek S, Getz G, Haussler D, Paten B |
Nature biotechnology |
28398314 |
Nat Biotechnol |
2017 Apr 11 |
https://www.ncbi.nlm.nih.gov/pubmed/28398314 |
| Developing a framework for digital objects in the Big Data to Knowledge (BD2K) commons: Report from the Commons Framework Pilots workshop. |
Jagodnik KM, Koplev S, Jenkins SL, Ohno-Machado L, Paten B, Schurer SC, Dumontier M, Verborgh R, Bui A, Ping P, McKenna NJ, Madduri R, Pillai A, Ma'ayan A |
Journal of biomedical informatics |
28501646 |
J Biomed Inform |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28501646 |
| Modeling gene-wise dependencies improves the identification of drug response biomarkers in cancer studies. |
Nikolova O, Moser R, Kemp C, Gönen M, Margolin AA |
Bioinformatics (Oxford, England) |
28082455 |
Bioinformatics |
2017 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28082455 |
| Nanopore native RNA sequencing of a human poly(A) transcriptome. |
Workman RE, Tang AD, Tang PS, Jain M, Tyson JR, Razaghi R, Zuzarte PC, Gilpatrick T, Payne A, Quick J, Sadowski N, Holmes N, de Jesus JG, Jones KL, Soulette CM, Snutch TP, Loman N, Paten B, Loose M, Simpson JT, Olsen HE, Brooks AN, Akeson M, Timp W |
Nature methods |
31740818 |
Nat Methods |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/31740818 |
| Positive selection in noncoding genomic regions of vocal learning birds is associated with genes implicated in vocal learning and speech functions in humans. |
Cahill JA, Armstrong J, Deran A, Khoury CJ, Paten B, Haussler D, Jarvis ED |
Genome research |
34667117 |
Genome Res |
2021 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/34667117 |
| The GA4GH Variation Representation Specification: A computational framework for variation representation and federated identification. |
Wagner AH, Babb L, Alterovitz G, Baudis M, Brush M, Cameron DL, Cline M, Griffith M, Griffith OL, Hunt SE, Kreda D, Lee JM, Li S, Lopez J, Moyer E, Nelson T, Patel RY, Riehle K, Robinson PN, Rynearson S, Schuilenburg H, Tsukanov K, Walsh B, Konopko M, Rehm HL, Yates AD, Freimuth RR, Hart RK |
Cell genomics |
35311178 |
Cell Genom |
2021 Nov 10 |
https://www.ncbi.nlm.nih.gov/pubmed/35311178 |
| International federation of genomic medicine databases using GA4GH standards. |
Thorogood A, Rehm HL, Goodhand P, Page AJH, Joly Y, Baudis M, Rambla J, Navarro A, Nyronen TH, Linden M, Dove ES, Fiume M, Brudno M, Cline MS, Bimey E |
Cell genomics |
35128509 |
Cell Genom |
2021 Nov 10 |
https://www.ncbi.nlm.nih.gov/pubmed/35128509 |
| Progressive Cactus is a multiple-genome aligner for the thousand-genome era. |
Armstrong J, Hickey G, Diekhans M, Fiddes IT, Novak AM, Deran A, Fang Q, Xie D, Feng S, Stiller J, Genereux D, Johnson J, Marinescu VD, Alföldi J, Harris RS, Lindblad-Toh K, Haussler D, Karlsson E, Jarvis ED, Zhang G, Paten B |
Nature |
33177663 |
Nature |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/33177663 |
| Modeling the impact of data sharing on variant classification. |
Casaletto J, Cline M, Shirts B |
Journal of the American Medical Informatics Association : JAMIA |
36451272 |
J Am Med Inform Assoc |
2023 Feb 16 |
https://www.ncbi.nlm.nih.gov/pubmed/36451272 |
| Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes. |
Shafin K, Pesout T, Lorig-Roach R, Haukness M, Olsen HE, Bosworth C, Armstrong J, Tigyi K, Maurer N, Koren S, Sedlazeck FJ, Marschall T, Mayes S, Costa V, Zook JM, Liu KJ, Kilburn D, Sorensen M, Munson KM, Vollger MR, Monlong J, Garrison E, Eichler EE, Salama S, Haussler D, Green RE, Akeson M, Phillippy A, Miga KH, Carnevali P, Jain M, Paten B |
Nature biotechnology |
32686750 |
Nat Biotechnol |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32686750 |
| The UCSC Genome Browser database: 2024 update. |
Raney BJ, Barber GP, Benet-Pagès A, Casper J, Clawson H, Cline MS, Diekhans M, Fischer C, Navarro Gonzalez J, Hickey G, Hinrichs AS, Kuhn RM, Lee BT, Lee CM, Le Mercier P, Miga KH, Nassar LR, Nejad P, Paten B, Perez G, Schmelter D, Speir ML, Wick BD, Zweig AS, Haussler D, Kent WJ, Haeussler M |
Nucleic acids research |
37953330 |
Nucleic Acids Res |
2024 Jan 5 |
https://www.ncbi.nlm.nih.gov/pubmed/37953330 |
| Consistency of BRCA1 and BRCA2 Variant Classifications Among Clinical Diagnostic Laboratories. |
Lincoln SE, Yang S, Cline MS, Kobayashi Y, Zhang C, Topper S, Haussler D, Paten B, Nussbaum RL |
JCO precision oncology |
28782058 |
JCO Precis Oncol |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28782058 |
| A graph extension of the positional Burrows-Wheeler transform and its applications. |
Novak AM, Garrison E, Paten B |
Algorithms for molecular biology : AMB |
28702075 |
Algorithms Mol Biol |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28702075 |
| Co-expression networks reveal the tissue-specific regulation of transcription and splicing. |
Saha A, Kim Y, Gewirtz ADH, Jo B, Gao C, McDowell IC, GTEx Consortium, Engelhardt BE, Battle A |
Genome research |
29021288 |
Genome Res |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/29021288 |
| Dynamic landscape and regulation of RNA editing in mammals. |
Tan MH, Li Q, Shanmugam R, Piskol R, Kohler J, Young AN, Liu KI, Zhang R, Ramaswami G, Ariyoshi K, Gupte A, Keegan LP, George CX, Ramu A, Huang N, Pollina EA, Leeman DS, Rustighi A, Goh YPS, GTEx Consortium, Laboratory, Data Analysis &Coordinating Center (LDACC)—Analysis Working Group, Statistical Methods groups—Analysis Working Group, Enhancing GTEx (eGTEx) groups, NIH Common Fund, NIH/NCI, NIH/NHGRI, NIH/NIMH, NIH/NIDA, Biospecimen Collection Source Site—NDRI, Biospecimen Collection Source Site—RPCI, Biospecimen Core Resource—VARI, Brain Bank Repository—University of Miami Brain Endowment Bank, Leidos Biomedical—Project Management, ELSI Study, Genome Browser Data Integration &Visualization—EBI, Genome Browser Data Integration &Visualization—UCSC Genomics Institute, University of California Santa Cruz, Chawla A, Del Sal G, Peltz G, Brunet A, Conrad DF, Samuel CE, O'Connell MA, Walkley CR, Nishikura K, Li JB |
Nature |
29022589 |
Nature |
2017 Oct 11 |
https://www.ncbi.nlm.nih.gov/pubmed/29022589 |
| Genetic effects on gene expression across human tissues. |
GTEx Consortium, Laboratory, Data Analysis &Coordinating Center (LDACC)—Analysis Working Group, Statistical Methods groups—Analysis Working Group, Enhancing GTEx (eGTEx) groups, NIH Common Fund, NIH/NCI, NIH/NHGRI, NIH/NIMH, NIH/NIDA, Biospecimen Collection Source Site—NDRI, Biospecimen Collection Source Site—RPCI, Biospecimen Core Resource—VARI, Brain Bank Repository—University of Miami Brain Endowment Bank, Leidos Biomedical—Project Management, ELSI Study, Genome Browser Data Integration &Visualization—EBI, Genome Browser Data Integration &Visualization—UCSC Genomics Institute, University of California Santa Cruz, Lead analysts:, Laboratory, Data Analysis &Coordinating Center (LDACC):, NIH program management:, Biospecimen collection:, Pathology:, eQTL manuscript working group:, Battle A, Brown CD, Engelhardt BE, Montgomery SB |
Nature |
29022597 |
Nature |
2017 Oct 11 |
https://www.ncbi.nlm.nih.gov/pubmed/29022597 |
| Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling. |
Rice ES, Kohno S, John JS, Pham S, Howard J, Lareau LF, O'Connell BL, Hickey G, Armstrong J, Deran A, Fiddes I, Platt RN 2nd, Gresham C, McCarthy F, Kern C, Haan D, Phan T, Schmidt C, Sanford JR, Ray DA, Paten B, Guillette LJ Jr, Green RE |
Genome research |
28137821 |
Genome Res |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/28137821 |
| Interactive Exploration on Large Genomic Datasets. |
Tu E |
EECS technical report series |
29308454 |
EECS Tech Rep Ser |
2016 Spring |
https://www.ncbi.nlm.nih.gov/pubmed/29308454 |
| Germline contamination and leakage in whole genome somatic single nucleotide variant detection. |
Sendorek DH, Caloian C, Ellrott K, Bare JC, Yamaguchi TN, Ewing AD, Houlahan KE, Norman TC, Margolin AA, Stuart JM, Boutros PC |
BMC bioinformatics |
29385983 |
BMC Bioinformatics |
2018 Jan 31 |
https://www.ncbi.nlm.nih.gov/pubmed/29385983 |
| Nanopore sequencing and assembly of a human genome with ultra-long reads. |
Jain M, Koren S, Miga KH, Quick J, Rand AC, Sasani TA, Tyson JR, Beggs AD, Dilthey AT, Fiddes IT, Malla S, Marriott H, Nieto T, O'Grady J, Olsen HE, Pedersen BS, Rhie A, Richardson H, Quinlan AR, Snutch TP, Tee L, Paten B, Phillippy AM, Simpson JT, Loman NJ, Loose M |
Nature biotechnology |
29431738 |
Nat Biotechnol |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29431738 |
| Linear assembly of a human centromere on the Y chromosome. |
Jain M, Olsen HE, Turner DJ, Stoddart D, Bulazel KV, Paten B, Haussler D, Willard HF, Akeson M, Miga KH |
Nature biotechnology |
29553574 |
Nat Biotechnol |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29553574 |
| Computational pan-genomics: status, promises and challenges. |
Computational Pan-Genomics Consortium |
Briefings in bioinformatics |
27769991 |
Brief Bioinform |
2018 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27769991 |
| Whole-Genome Alignment and Comparative Annotation. |
Armstrong J, Fiddes IT, Diekhans M, Paten B |
Annual review of animal biosciences |
30379572 |
Annu Rev Anim Biosci |
2019 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/30379572 |
| Chromosome assembly of large and complex genomes using multiple references. |
Kolmogorov M, Armstrong J, Raney BJ, Streeter I, Dunn M, Yang F, Odom D, Flicek P, Keane TM, Thybert D, Paten B, Pham S |
Genome research |
30341161 |
Genome Res |
2018 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30341161 |
| Long-read sequence assembly of the gorilla genome. |
Gordon D, Huddleston J, Chaisson MJ, Hill CM, Kronenberg ZN, Munson KM, Malig M, Raja A, Fiddes I, Hillier LW, Dunn C, Baker C, Armstrong J, Diekhans M, Paten B, Shendure J, Wilson RK, Haussler D, Chin CS, Eichler EE |
Science (New York, N.Y.) |
27034376 |
Science |
2016 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27034376 |
| DECA: scalable XHMM exome copy-number variant calling with ADAM and Apache Spark. |
Linderman MD, Chia D, Wallace F, Nothaft FA |
BMC bioinformatics |
31604420 |
BMC Bioinformatics |
2019 Oct 11 |
https://www.ncbi.nlm.nih.gov/pubmed/31604420 |
| Haplotype-aware diplotyping from noisy long reads. |
Ebler J, Haukness M, Pesout T, Marschall T, Paten B |
Genome biology |
31159868 |
Genome Biol |
2019 Jun 3 |
https://www.ncbi.nlm.nih.gov/pubmed/31159868 |
| Sequence tube maps: making graph genomes intuitive to commuters. |
Beyer W, Novak AM, Hickey G, Chan J, Tan V, Paten B, Zerbino DR |
Bioinformatics (Oxford, England) |
31368484 |
Bioinformatics |
2019 Dec 15 |
https://www.ncbi.nlm.nih.gov/pubmed/31368484 |
| An evolutionary arms race between KRAB zinc-finger genes ZNF91/93 and SVA/L1 retrotransposons. |
Jacobs FM, Greenberg D, Nguyen N, Haeussler M, Ewing AD, Katzman S, Paten B, Salama SR, Haussler D |
Nature |
25274305 |
Nature |
2014 Dec 11 |
https://www.ncbi.nlm.nih.gov/pubmed/25274305 |
| RADIA: RNA and DNA integrated analysis for somatic mutation detection. |
Radenbaugh AJ, Ma S, Ewing A, Stuart JM, Collisson EA, Zhu J, Haussler D |
PloS one |
25405470 |
PLoS One |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/25405470 |
| Alignathon: a competitive assessment of whole-genome alignment methods. |
Earl D, Nguyen N, Hickey G, Harris RS, Fitzgerald S, Beal K, Seledtsov I, Molodtsov V, Raney BJ, Clawson H, Kim J, Kemena C, Chang JM, Erb I, Poliakov A, Hou M, Herrero J, Kent WJ, Solovyev V, Darling AE, Ma J, Notredame C, Brudno M, Dubchak I, Haussler D, Paten B |
Genome research |
25273068 |
Genome Res |
2014 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/25273068 |
| Simulation studies as designed experiments: the comparison of penalized regression models in the "large p, small n" setting. |
Chaibub Neto E, Bare JC, Margolin AA |
PloS one |
25289666 |
PLoS One |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/25289666 |
| Detecting and targetting oncogenic fusion proteins in the genomic era. |
Davare MA, Tognon CE |
Biology of the cell |
25631473 |
Biol Cell |
2015 May |
https://www.ncbi.nlm.nih.gov/pubmed/25631473 |
| App-enabled trial participation: Tectonic shift or tepid rumble? |
Friend SH |
Science translational medicine |
26203077 |
Sci Transl Med |
2015 Jul 22 |
https://www.ncbi.nlm.nih.gov/pubmed/26203077 |
| Canonical, stable, general mapping using context schemes. |
Novak AM, Rosen Y, Haussler D, Paten B |
Bioinformatics (Oxford, England) |
26220960 |
Bioinformatics |
2015 Nov 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26220960 |
| Bayesian Framework for Detecting Gene Expression Outliers in Individual Samples. |
Vivian J, Eizenga JM, Beale HC, Vaske OM, Paten B |
JCO clinical cancer informatics |
32097024 |
JCO Clin Cancer Inform |
2020 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/32097024 |
| Genotyping structural variants in pangenome graphs using the vg toolkit. |
Hickey G, Heller D, Monlong J, Sibbesen JA, Sirén J, Eizenga J, Dawson ET, Garrison E, Novak AM, Paten B |
Genome biology |
32051000 |
Genome Biol |
2020 Feb 12 |
https://www.ncbi.nlm.nih.gov/pubmed/32051000 |
| Evaluation of off-target and on-target scoring algorithms and integration into the guide RNA selection tool CRISPOR. |
Haeussler M, Schönig K, Eckert H, Eschstruth A, Mianné J, Renaud JB, Schneider-Maunoury S, Shkumatava A, Teboul L, Kent J, Joly JS, Concordet JP |
Genome biology |
27380939 |
Genome Biol |
2016 Jul 5 |
https://www.ncbi.nlm.nih.gov/pubmed/27380939 |
| Crowdsourcing biomedical research: leveraging communities as innovation engines. |
Saez-Rodriguez J, Costello JC, Friend SH, Kellen MR, Mangravite L, Meyer P, Norman T, Stolovitzky G |
Nature reviews. Genetics |
27418159 |
Nat Rev Genet |
2016 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/27418159 |
| Chromosome-scale shotgun assembly using an in vitro method for long-range linkage. |
Putnam NH, O'Connell BL, Stites JC, Rice BJ, Blanchette M, Calef R, Troll CJ, Fields A, Hartley PD, Sugnet CW, Haussler D, Rokhsar DS, Green RE |
Genome research |
26848124 |
Genome Res |
2016 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/26848124 |
| Towards inferring nanopore sequencing ionic currents from nucleotide chemical structures. |
Ding H, Anastopoulos I, Bailey AD 4th, Stuart J, Paten B |
Nature communications |
34764310 |
Nat Commun |
2021 Nov 11 |
https://www.ncbi.nlm.nih.gov/pubmed/34764310 |
| Federated Analysis for Privacy-Preserving Data Sharing: A Technical and Legal Primer. |
Casaletto J, Bernier A, McDougall R, Cline MS |
Annual review of genomics and human genetics |
37253596 |
Annu Rev Genomics Hum Genet |
2023 Aug 25 |
https://www.ncbi.nlm.nih.gov/pubmed/37253596 |
| IntOGen-mutations identifies cancer drivers across tumor types. |
Gonzalez-Perez A, Perez-Llamas C, Deu-Pons J, Tamborero D, Schroeder MP, Jene-Sanz A, Santos A, Lopez-Bigas N |
Nature methods |
24037244 |
Nat Methods |
2013 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/24037244 |
| Navigating protected genomics data with UCSC Genome Browser in a Box. |
Haeussler M, Raney BJ, Hinrichs AS, Clawson H, Zweig AS, Karolchik D, Casper J, Speir ML, Haussler D, Kent WJ |
Bioinformatics (Oxford, England) |
25348212 |
Bioinformatics |
2015 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/25348212 |
| The UCSC Cancer Genomics Browser: update 2015. |
Goldman M, Craft B, Swatloski T, Cline M, Morozova O, Diekhans M, Haussler D, Zhu J |
Nucleic acids research |
25392408 |
Nucleic Acids Res |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25392408 |
| The UCSC Genome Browser database: 2015 update. |
Rosenbloom KR, Armstrong J, Barber GP, Casper J, Clawson H, Diekhans M, Dreszer TR, Fujita PA, Guruvadoo L, Haeussler M, Harte RA, Heitner S, Hickey G, Hinrichs AS, Hubley R, Karolchik D, Learned K, Lee BT, Li CH, Miga KH, Nguyen N, Paten B, Raney BJ, Smit AF, Speir ML, Zweig AS, Haussler D, Kuhn RM, Kent WJ |
Nucleic acids research |
25428374 |
Nucleic Acids Res |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25428374 |
| The NIH BD2K center for big data in translational genomics. |
Paten B, Diekhans M, Druker BJ, Friend S, Guinney J, Gassner N, Guttman M, Kent WJ, Mantey P, Margolin AA, Massie M, Novak AM, Nothaft F, Pachter L, Patterson D, Smuga-Otto M, Stuart JM, Van't Veer L, Wold B, Haussler D |
Journal of the American Medical Informatics Association : JAMIA |
26174866 |
J Am Med Inform Assoc |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26174866 |
| UCSC Data Integrator and Variant Annotation Integrator. |
Hinrichs AS, Raney BJ, Speir ML, Rhead B, Casper J, Karolchik D, Kuhn RM, Rosenbloom KR, Zweig AS, Haussler D, Kent WJ |
Bioinformatics (Oxford, England) |
26740527 |
Bioinformatics |
2016 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26740527 |
| Durable Disease Control with MEK Inhibition in a Patient with NRAS-mutated Atypical Chronic Myeloid Leukemia. |
Khanna V, Pierce ST, Dao KH, Tognon CE, Hunt DE, Junio B, Tyner JW, Druker BJ |
Cureus |
26870618 |
Cureus |
2015 Dec 17 |
https://www.ncbi.nlm.nih.gov/pubmed/26870618 |
| Inferring causal molecular networks: empirical assessment through a community-based effort. |
Hill SM, Heiser LM, Cokelaer T, Unger M, Nesser NK, Carlin DE, Zhang Y, Sokolov A, Paull EO, Wong CK, Graim K, Bivol A, Wang H, Zhu F, Afsari B, Danilova LV, Favorov AV, Lee WS, Taylor D, Hu CW, Long BL, Noren DP, Bisberg AJ, HPN-DREAM Consortium, Mills GB, Gray JW, Kellen M, Norman T, Friend S, Qutub AA, Fertig EJ, Guan Y, Song M, Stuart JM, Spellman PT, Koeppl H, Stolovitzky G, Saez-Rodriguez J, Mukherjee S |
Nature methods |
26901648 |
Nat Methods |
2016 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26901648 |
| Stepwise group sparse regression (SGSR): gene-set-based pharmacogenomic predictive models with stepwise selection of functional priors. |
Jang IS, Dienstmann R, Margolin AA, Guinney J |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
25592566 |
Pac Symp Biocomput |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/25592566 |
| A Recurrent Mutation in Anaplastic Lymphoma Kinase with Distinct Neoepitope Conformations. |
Toor JS, Rao AA, McShan AC, Yarmarkovich M, Nerli S, Yamaguchi K, Madejska AA, Nguyen S, Tripathi S, Maris JM, Salama SR, Haussler D, Sgourakis NG |
Frontiers in immunology |
29441070 |
Front Immunol |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29441070 |
| Superbubbles, Ultrabubbles, and Cacti. |
Paten B, Eizenga JM, Rosen YM, Novak AM, Garrison E, Hickey G |
Journal of computational biology : a journal of computational molecular cell biology |
29461862 |
J Comput Biol |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29461862 |
| A Flow Procedure for Linearization of Genome Sequence Graphs. |
Haussler D, Smuga-Otto M, Eizenga JM, Paten B, Novak AM, Nikitin S, Zueva M, Miagkov D |
Journal of computational biology : a journal of computational molecular cell biology |
29792514 |
J Comput Biol |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29792514 |
| Representing and decomposing genomic structural variants as balanced integer flows on sequence graphs. |
Zerbino DR, Ballinger T, Paten B, Hickey G, Haussler D |
BMC bioinformatics |
27687569 |
BMC Bioinformatics |
2016 Sep 29 |
https://www.ncbi.nlm.nih.gov/pubmed/27687569 |
| DATA SHARING AND REPRODUCIBLE CLINICAL GENETIC TESTING: SUCCESSES AND CHALLENGES. |
Yang S, Cline M, Zhang C, Paten B, Lincoln SE |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
27896972 |
Pac Symp Biocomput |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/27896972 |
| Integrated Genomic Analysis of Diverse Induced Pluripotent Stem Cells from the Progenitor Cell Biology Consortium. |
Salomonis N, Dexheimer PJ, Omberg L, Schroll R, Bush S, Huo J, Schriml L, Ho Sui S, Keddache M, Mayhew C, Shanmukhappa SK, Wells J, Daily K, Hubler S, Wang Y, Zambidis E, Margolin A, Hide W, Hatzopoulos AK, Malik P, Cancelas JA, Aronow BJ, Lutzko C |
Stem cell reports |
27293150 |
Stem Cell Reports |
2016 Jul 12 |
https://www.ncbi.nlm.nih.gov/pubmed/27293150 |
| BRCA Challenge: BRCA Exchange as a global resource for variants in BRCA1 and BRCA2. |
Cline MS, Liao RG, Parsons MT, Paten B, Alquaddoomi F, Antoniou A, Baxter S, Brody L, Cook-Deegan R, Coffin A, Couch FJ, Craft B, Currie R, Dlott CC, Dolman L, den Dunnen JT, Dyke SOM, Domchek SM, Easton D, Fischmann Z, Foulkes WD, Garber J, Goldgar D, Goldman MJ, Goodhand P, Harrison S, Haussler D, Kato K, Knoppers B, Markello C, Nussbaum R, Offit K, Plon SE, Rashbass J, Rehm HL, Robson M, Rubinstein WS, Stoppa-Lyonnet D, Tavtigian S, Thorogood A, Zhang C, Zimmermann M, BRCA Challenge Authors, Burn J, Chanock S, Rätsch G, Spurdle AB |
PLoS genetics |
30586411 |
PLoS Genet |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30586411 |
| Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes. |
Thybert D, Roller M, Navarro FCP, Fiddes I, Streeter I, Feig C, Martin-Galvez D, Kolmogorov M, Janoušek V, Akanni W, Aken B, Aldridge S, Chakrapani V, Chow W, Clarke L, Cummins C, Doran A, Dunn M, Goodstadt L, Howe K, Howell M, Josselin AA, Karn RC, Laukaitis CM, Jingtao L, Martin F, Muffato M, Nachtweide S, Quail MA, Sisu C, Stanke M, Stefflova K, Van Oosterhout C, Veyrunes F, Ward B, Yang F, Yazdanifar G, Zadissa A, Adams DJ, Brazma A, Gerstein M, Paten B, Pham S, Keane TM, Odom DT, Flicek P |
Genome research |
29563166 |
Genome Res |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29563166 |
| Telomere-to-telomere assembly of a complete human X chromosome. |
Miga KH, Koren S, Rhie A, Vollger MR, Gershman A, Bzikadze A, Brooks S, Howe E, Porubsky D, Logsdon GA, Schneider VA, Potapova T, Wood J, Chow W, Armstrong J, Fredrickson J, Pak E, Tigyi K, Kremitzki M, Markovic C, Maduro V, Dutra A, Bouffard GG, Chang AM, Hansen NF, Wilfert AB, Thibaud-Nissen F, Schmitt AD, Belton JM, Selvaraj S, Dennis MY, Soto DC, Sahasrabudhe R, Kaya G, Quick J, Loman NJ, Holmes N, Loose M, Surti U, Risques RA, Graves Lindsay TA, Fulton R, Hall I, Paten B, Howe K, Timp W, Young A, Mullikin JC, Pevzner PA, Gerton JL, Sullivan BA, Eichler EE, Phillippy AM |
Nature |
32663838 |
Nature |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32663838 |
| Dense sampling of bird diversity increases power of comparative genomics. |
Feng S, Stiller J, Deng Y, Armstrong J, Fang Q, Reeve AH, Xie D, Chen G, Guo C, Faircloth BC, Petersen B, Wang Z, Zhou Q, Diekhans M, Chen W, Andreu-Sánchez S, Margaryan A, Howard JT, Parent C, Pacheco G, Sinding MS, Puetz L, Cavill E, Ribeiro ÂM, Eckhart L, Fjeldså J, Hosner PA, Brumfield RT, Christidis L, Bertelsen MF, Sicheritz-Ponten T, Tietze DT, Robertson BC, Song G, Borgia G, Claramunt S, Lovette IJ, Cowen SJ, Njoroge P, Dumbacher JP, Ryder OA, Fuchs J, Bunce M, Burt DW, Cracraft J, Meng G, Hackett SJ, Ryan PG, Jønsson KA, Jamieson IG, da Fonseca RR, Braun EL, Houde P, Mirarab S, Suh A, Hansson B, Ponnikas S, Sigeman H, Stervander M, Frandsen PB, van der Zwan H, van der Sluis R, Visser C, Balakrishnan CN, Clark AG, Fitzpatrick JW, Bowman R, Chen N, Cloutier A, Sackton TB, Edwards SV, Foote DJ, Shakya SB, Sheldon FH, Vignal A, Soares AER, Shapiro B, González-Solís J, Ferrer-Obiol J, Rozas J, Riutort M, Tigano A, Friesen V, Dalén L, Urrutia AO, Székely T, Liu Y, Campana MG, Corvelo A, Fleischer RC, Rutherford KM, Gemmell NJ, Dussex N, Mouritsen H, Thiele N, Delmore K, Liedvogel M, Franke A, Hoeppner MP, Krone O, Fudickar AM, Milá B, Ketterson ED, Fidler AE, Friis G, Parody-Merino ÁM, Battley PF, Cox MP, Lima NCB, Prosdocimi F, Parchman TL, Schlinger BA, Loiselle BA, Blake JG, Lim HC, Day LB, Fuxjager MJ, Baldwin MW, Braun MJ, Wirthlin M, Dikow RB, Ryder TB, Camenisch G, Keller LF, DaCosta JM, Hauber ME, Louder MIM, Witt CC, McGuire JA, Mudge J, Megna LC, Carling MD, Wang B, Taylor SA, Del-Rio G, Aleixo A, Vasconcelos ATR, Mello CV, Weir JT, Haussler D, Li Q, Yang H, Wang J, Lei F, Rahbek C, Gilbert MTP, Graves GR, Jarvis ED, Paten B, Zhang G |
Nature |
33177665 |
Nature |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/33177665 |
| GA4GH: International policies and standards for data sharing across genomic research and healthcare. |
Rehm HL, Page AJH, Smith L, Adams JB, Alterovitz G, Babb LJ, Barkley MP, Baudis M, Beauvais MJS, Beck T, Beckmann JS, Beltran S, Bernick D, Bernier A, Bonfield JK, Boughtwood TF, Bourque G, Bowers SR, Brookes AJ, Brudno M, Brush MH, Bujold D, Burdett T, Buske OJ, Cabili MN, Cameron DL, Carroll RJ, Casas-Silva E, Chakravarty D, Chaudhari BP, Chen SH, Cherry JM, Chung J, Cline M, Clissold HL, Cook-Deegan RM, Courtot M, Cunningham F, Cupak M, Davies RM, Denisko D, Doerr MJ, Dolman LI, Dove ES, Dursi LJ, Dyke SOM, Eddy JA, Eilbeck K, Ellrott KP, Fairley S, Fakhro KA, Firth HV, Fitzsimons MS, Fiume M, Flicek P, Fore IM, Freeberg MA, Freimuth RR, Fromont LA, Fuerth J, Gaff CL, Gan W, Ghanaim EM, Glazer D, Green RC, Griffith M, Griffith OL, Grossman RL, Groza T, Guidry Auvil JM, Guigó R, Gupta D, Haendel MA, Hamosh A, Hansen DP, Hart RK, Hartley DM, Haussler D, Hendricks-Sturrup RM, Ho CWL, Hobb AE, Hoffman MM, Hofmann OM, Holub P, Hsu JS, Hubaux JP, Hunt SE, Husami A, Jacobsen JO, Jamuar SS, Janes EL, Jeanson F, Jené A, Johns AL, Joly Y, Jones SJM, Kanitz A, Kato K, Keane TM, Kekesi-Lafrance K, Kelleher J, Kerry G, Khor SS, Knoppers BM, Konopko MA, Kosaki K, Kuba M, Lawson J, Leinonen R, Li S, Lin MF, Linden M, Liu X, Udara Liyanage I, Lopez J, Lucassen AM, Lukowski M, Mann AL, Marshall J, Mattioni M, Metke-Jimenez A, Middleton A, Milne RJ, Molnár-Gábor F, Mulder N, Munoz-Torres MC, Nag R, Nakagawa H, Nasir J, Navarro A, Nelson TH, Niewielska A, Nisselle A, Niu J, Nyrönen TH, O'Connor BD, Oesterle S, Ogishima S, Wang VO, Paglione LAD, Palumbo E, Parkinson HE, Philippakis AA, Pizarro AD, Prlic A, Rambla J, Rendon A, Rider RA, Robinson PN, Rodarmer KW, Rodriguez LL, Rubin AF, Rueda M, Rushton GA, Ryan RS, Saunders GI, Schuilenburg H, Schwede T, Scollen S, Senf A, Sheffield NC, Skantharajah N, Smith AV, Sofia HJ, Spalding D, Spurdle AB, Stark Z, Stein LD, Suematsu M, Tan P, Tedds JA, Thomson AA, Thorogood A, Tickle TL, Tokunaga K, Törnroos J, Torrents D, Upchurch S, Valencia A, Guimera RV, Vamathevan J, Varma S, Vears DF, Viner C, Voisin C, Wagner AH, Wallace SE, Walsh BP, Williams MS, Winkler EC, Wold BJ, Wood GM, Woolley JP, Yamasaki C, Yates AD, Yung CK, Zass LJ, Zaytseva K, Zhang J, Goodhand P, North K, Birney E |
Cell genomics |
35072136 |
Cell Genom |
2021 Nov 10 |
https://www.ncbi.nlm.nih.gov/pubmed/35072136 |
| Automatic wound detection and size estimation using deep learning algorithms. |
Carrión H, Jafari M, Bagood MD, Yang HY, Isseroff RR, Gomez M |
PLoS computational biology |
35275923 |
PLoS Comput Biol |
2022 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/35275923 |
| Protein signaling and drug target activation signatures to guide therapy prioritization: Therapeutic resistance and sensitivity in the I-SPY 2 Trial. |
Gallagher RI, Wulfkuhle J, Wolf DM, Brown-Swigart L, Yau C, O'Grady N, Basu A, Lu R, Campbell MJ, Magbanua MJ, Coppé JP, I-SPY 2 Investigators, Asare SM, Sit L, Matthews JB, Perlmutter J, Hylton N, Liu MC, Symmans WF, Rugo HS, Isaacs C, DeMichele AM, Yee D, Pohlmann PR, Hirst GL, Esserman LJ, van 't Veer LJ, Petricoin EF |
Cell reports. Medicine |
38086377 |
Cell Rep Med |
2023 Dec 19 |
https://www.ncbi.nlm.nih.gov/pubmed/38086377 |
| Cell-free DNA Concentration as a Biomarker of Response and Recurrence in HER2-Negative Breast Cancer Receiving Neoadjuvant Chemotherapy. |
Magbanua MJM, Ahmed Z, Sayaman RW, Brown Swigart L, Hirst GL, Yau C, Wolf DM, Li W, Delson AL, Perlmutter J, Pohlmann P, Symmans WF, Yee D, Hylton NM, Esserman LJ, DeMichele AM, Rugo HS, van 't Veer LJ |
Clinical cancer research : an official journal of the American Association for Cancer Research |
38470545 |
Clin Cancer Res |
2024 Jun 3 |
https://www.ncbi.nlm.nih.gov/pubmed/38470545 |
| Analytic Complexity and Challenges in Identifying Mixtures of Exposures Associated with Phenotypes in the Exposome Era. |
Patel CJ |
Current epidemiology reports |
28251040 |
Curr Epidemiol Rep |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28251040 |
| Large-scale identification of patients with cerebral aneurysms using natural language processing. |
Castro VM, Dligach D, Finan S, Yu S, Can A, Abd-El-Barr M, Gainer V, Shadick NA, Murphy S, Cai T, Savova G, Weiss ST, Du R |
Neurology |
27927935 |
Neurology |
2017 Jan 10 |
https://www.ncbi.nlm.nih.gov/pubmed/27927935 |
| Sequence robust association test for familial data. |
Dai W, Yang M, Wang C, Cai T |
Biometrics |
28273695 |
Biometrics |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/28273695 |
| Informatics and Data Analytics to Support Exposome-Based Discovery for Public Health. |
Manrai AK, Cui Y, Bushel PR, Hall M, Karakitsios S, Mattingly CJ, Ritchie M, Schmitt C, Sarigiannis DA, Thomas DC, Wishart D, Balshaw DM, Patel CJ |
Annual review of public health |
28068484 |
Annu Rev Public Health |
2017 Mar 20 |
https://www.ncbi.nlm.nih.gov/pubmed/28068484 |
| Evaluating surrogate marker information using censored data. |
Parast L, Cai T, Tian L |
Statistics in medicine |
28088843 |
Stat Med |
2017 May 20 |
https://www.ncbi.nlm.nih.gov/pubmed/28088843 |
| Automated feature selection of predictors in electronic medical records data. |
Gronsbell J, Minnier J, Yu S, Liao K, Cai T |
Biometrics |
30353541 |
Biometrics |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30353541 |
| Elevated International Normalized Ratio Is Associated With Ruptured Aneurysms. |
Can A, Castro VM, Dligach D, Finan S, Yu S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R |
Stroke |
30354989 |
Stroke |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/30354989 |
| HiGlass: web-based visual exploration and analysis of genome interaction maps. |
Kerpedjiev P, Abdennur N, Lekschas F, McCallum C, Dinkla K, Strobelt H, Luber JM, Ouellette SB, Azhir A, Kumar N, Hwang J, Lee S, Alver BH, Pfister H, Mirny LA, Park PJ, Gehlenborg N |
Genome biology |
30143029 |
Genome Biol |
2018 Aug 24 |
https://www.ncbi.nlm.nih.gov/pubmed/30143029 |
| Estimation and testing for multiple regulation of multivariate mixed outcomes. |
Agniel D, Liao KP, Cai T |
Biometrics |
26910481 |
Biometrics |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/26910481 |
| Association Between Anti-Citrullinated Fibrinogen Antibodies and Coronary Artery Disease in Rheumatoid Arthritis. |
Hejblum BP, Cui J, Lahey LJ, Cagan A, Sparks JA, Sokolove J, Cai T, Liao KP |
Arthritis care & research |
28992379 |
Arthritis Care Res (Hoboken) |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28992379 |
| Model-averaged confounder adjustment for estimating multivariate exposure effects with linear regression. |
Wilson A, Zigler CM, Patel CJ, Dominici F |
Biometrics |
29569228 |
Biometrics |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/29569228 |
| GenoPheno: cataloging large-scale phenotypic and next-generation sequencing data within human datasets. |
Gutiérrez-Sacristán A, De Niz C, Kothari C, Kong SW, Mandl KD, Avillach P |
Briefings in bioinformatics |
32249310 |
Brief Bioinform |
2021 Jan 18 |
https://www.ncbi.nlm.nih.gov/pubmed/32249310 |
| Large-Scale Simultaneous Testing of Cross-Covariance Matrices with Applications to PheWAS. |
Cai T, Cai TT, Liao K, Liu W |
Statistica Sinica |
31889766 |
Stat Sin |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31889766 |
| Identifying predictive markers for personalized treatment selection. |
Shen Y, Cai T |
Biometrics |
26999054 |
Biometrics |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/26999054 |
| Utilizing uncoded consultation notes from electronic medical records for predictive modeling of colorectal cancer. |
Hoogendoorn M, Szolovits P, Moons LMG, Numans ME |
Artificial intelligence in medicine |
27085847 |
Artif Intell Med |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/27085847 |
| Assessing incremental value of biomarkers with multi-phase nested case-control studies. |
Zhou QM, Zheng Y, Chibnik LB, Karlson EW, Cai T |
Biometrics |
26195245 |
Biometrics |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/26195245 |
| A database of human exposomes and phenomes from the US National Health and Nutrition Examination Survey. |
Patel CJ, Pho N, McDuffie M, Easton-Marks J, Kothari C, Kohane IS, Avillach P |
Scientific data |
27779619 |
Sci Data |
2016 Oct 25 |
https://www.ncbi.nlm.nih.gov/pubmed/27779619 |
| Regularization of Deep Neural Networks for EEG Seizure Detection to Mitigate Overfitting. |
Saqib M, Zhu Y, Wang MD, Beaulieu-Jones B |
Proceedings : Annual International Computer Software and Applications Conference. COMPSAC |
33073266 |
Proc COMPSAC |
2020 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/33073266 |
| Balancing Accuracy and Privacy in Federated Queries of Clinical Data Repositories: Algorithm Development and Validation. |
Yu YW, Weber GM |
Journal of medical Internet research |
33141090 |
J Med Internet Res |
2020 Nov 3 |
https://www.ncbi.nlm.nih.gov/pubmed/33141090 |
| Vascular Geometry Associated with Anterior Communicating Artery Aneurysm Formation. |
Zhang J, Can A, Lai PMR, Mukundan S Jr, Castro VM, Dligach D, Finan S, Gainer VS, Shadick NA, Savova G, Murphy SN, Cai T, Weiss ST, Du R |
World neurosurgery |
33307259 |
World Neurosurg |
2021 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/33307259 |
| Age and morphology of posterior communicating artery aneurysms. |
Zhang J, Can A, Lai PMR, Mukundan S Jr, Castro VM, Dligach D, Finan S, Yu S, Gainer VS, Shadick NA, Savova G, Murphy SN, Cai T, Weiss ST, Du R |
Scientific reports |
32665589 |
Sci Rep |
2020 Jul 14 |
https://www.ncbi.nlm.nih.gov/pubmed/32665589 |
| Deep Learning Benchmarks on L1000 Gene Expression Data. |
McDermott MBA, Wang J, Zhao WN, Sheridan SD, Szolovits P, Kohane I, Haggarty SJ, Perlis RH |
IEEE/ACM transactions on computational biology and bioinformatics |
30990190 |
IEEE/ACM Trans Comput Biol Bioinform |
2020 Nov-Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30990190 |
| Morphological variables associated with ruptured basilar tip aneurysms. |
Zhang J, Can A, Lai PMR, Mukundan S Jr, Castro VM, Dligach D, Finan S, Gainer VS, Shadick NA, Savova G, Murphy SN, Cai T, Weiss ST, Du R |
Scientific reports |
33510194 |
Sci Rep |
2021 Jan 28 |
https://www.ncbi.nlm.nih.gov/pubmed/33510194 |
| HyperMinHash: MinHash in LogLog space. |
Yu YW, Weber GM |
IEEE transactions on knowledge and data engineering |
38288326 |
IEEE Trans Knowl Data Eng |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/38288326 |
| Sparse kernel machine regression for ordinal outcomes. |
Shen Y, Liao KP, Cai T |
Biometrics |
25196727 |
Biometrics |
2015 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/25196727 |
| ksRepo: a generalized platform for computational drug repositioning. |
Brown AS, Kong SW, Kohane IS, Patel CJ |
BMC bioinformatics |
26860211 |
BMC Bioinformatics |
2016 Feb 9 |
https://www.ncbi.nlm.nih.gov/pubmed/26860211 |
| Association between aspirin dose and subarachnoid hemorrhage from saccular aneurysms: A case-control study. |
Can A, Rudy RF, Castro VM, Yu S, Dligach D, Finan S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R |
Neurology |
30135253 |
Neurology |
2018 Sep 18 |
https://www.ncbi.nlm.nih.gov/pubmed/30135253 |
| Web services for data warehouses: OMOP and PCORnet on i2b2. |
Klann JG, Phillips LC, Herrick C, Joss MAH, Wagholikar KB, Murphy SN |
Journal of the American Medical Informatics Association : JAMIA |
30085008 |
J Am Med Inform Assoc |
2018 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30085008 |
| Development of an Algorithm to Identify Patients with Physician-Documented Insomnia. |
Kartoun U, Aggarwal R, Beam AL, Pai JK, Chatterjee AK, Fitzgerald TP, Kohane IS, Shaw SY |
Scientific reports |
29777125 |
Sci Rep |
2018 May 18 |
https://www.ncbi.nlm.nih.gov/pubmed/29777125 |
| Association between inflammation and systolic blood pressure in RA compared to patients without RA. |
Yu Z, Kim SC, Vanni K, Huang J, Desai R, Murphy SN, Solomon DH, Liao KP |
Arthritis research & therapy |
29855349 |
Arthritis Res Ther |
2018 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29855349 |
| Feasibility of using social media to monitor outdoor air pollution in London, England. |
Hswen Y, Qin Q, Brownstein JS, Hawkins JB |
Preventive medicine |
30742873 |
Prev Med |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30742873 |
| Tensor factorization toward precision medicine. |
Luo Y, Wang F, Szolovits P |
Briefings in bioinformatics |
26994614 |
Brief Bioinform |
2017 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26994614 |
| On longitudinal prediction with time-to-event outcome: Comparison of modeling options. |
Maziarz M, Heagerty P, Cai T, Zheng Y |
Biometrics |
27438160 |
Biometrics |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/27438160 |
| Origins of lymphatic and distant metastases in human colorectal cancer. |
Naxerova K, Reiter JG, Brachtel E, Lennerz JK, van de Wetering M, Rowan A, Cai T, Clevers H, Swanton C, Nowak MA, Elledge SJ, Jain RK |
Science (New York, N.Y.) |
28684519 |
Science |
2017 Jul 7 |
https://www.ncbi.nlm.nih.gov/pubmed/28684519 |
| Phelan-McDermid syndrome data network: Integrating patient reported outcomes with clinical notes and curated genetic reports. |
Kothari C, Wack M, Hassen-Khodja C, Finan S, Savova G, O'Boyle M, Bliss G, Cornell A, Horn EJ, Davis R, Jacobs J, Kohane I, Avillach P |
American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics |
28862395 |
Am J Med Genet B Neuropsychiatr Genet |
2018 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28862395 |
| Grappling with the Future Use of Big Data for Translational Medicine and Clinical Care. |
Murphy S, Castro V, Mandl K |
Yearbook of medical informatics |
29063545 |
Yearb Med Inform |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29063545 |
| UpSetR: an R package for the visualization of intersecting sets and their properties. |
Conway JR, Lex A, Gehlenborg N |
Bioinformatics (Oxford, England) |
28645171 |
Bioinformatics |
2017 Sep 15 |
https://www.ncbi.nlm.nih.gov/pubmed/28645171 |
| Systematic identification of correlates of HIV infection: an X-wide association study. |
Patel CJ, Bhattacharya J, Ioannidis JPA, Bendavid E |
AIDS (London, England) |
29424772 |
AIDS |
2018 Apr 24 |
https://www.ncbi.nlm.nih.gov/pubmed/29424772 |
| A fast divide-and-conquer sparse Cox regression. |
Wang Y, Hong C, Palmer N, Di Q, Schwartz J, Kohane I, Cai T |
Biostatistics (Oxford, England) |
31545341 |
Biostatistics |
2021 Apr 10 |
https://www.ncbi.nlm.nih.gov/pubmed/31545341 |
| Machine learning on drug-specific data to predict small molecule teratogenicity. |
Challa AP, Beam AL, Shen M, Peryea T, Lavieri RR, Lippmann ES, Aronoff DM |
Reproductive toxicology (Elmsford, N.Y.) |
32428651 |
Reprod Toxicol |
2020 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/32428651 |
| Multi-PheWAS intersection approach to identify sex differences across comorbidities in 59 140 pediatric patients with autism spectrum disorder. |
Gutiérrez-Sacristán A, Sáez C, De Niz C, Jalali N, DeSain TN, Kumar R, Zachariasse JM, Fox KP, Palmer N, Kohane I, Avillach P |
Journal of the American Medical Informatics Association : JAMIA |
34405856 |
J Am Med Inform Assoc |
2022 Jan 12 |
https://www.ncbi.nlm.nih.gov/pubmed/34405856 |
| ATLAS: an automated association test using probabilistically linked health records with application to genetic studies. |
Zhang HG, Hejblum BP, Weber GM, Palmer NP, Churchill SE, Szolovits P, Murphy SN, Liao KP, Kohane IS, Cai T |
Journal of the American Medical Informatics Association : JAMIA |
34608931 |
J Am Med Inform Assoc |
2021 Nov 25 |
https://www.ncbi.nlm.nih.gov/pubmed/34608931 |
| Surrounding vascular geometry associated with basilar tip aneurysm formation. |
Zhang J, Can A, Lai PMR, Mukundan S Jr, Castro VM, Dligach D, Finan S, Gainer VS, Shadick NA, Savova G, Murphy SN, Cai T, Weiss ST, Du R |
Scientific reports |
33087795 |
Sci Rep |
2020 Oct 21 |
https://www.ncbi.nlm.nih.gov/pubmed/33087795 |
| A multidimensional precision medicine approach identifies an autism subtype characterized by dyslipidemia. |
Luo Y, Eran A, Palmer N, Avillach P, Levy-Moonshine A, Szolovits P, Kohane IS |
Nature medicine |
32778826 |
Nat Med |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32778826 |
| Testing Differential Networks with Applications to Detecting Gene-by-Gene Interactions. |
Xia Y, Cai T, Cai TT |
Biometrika |
28502988 |
Biometrika |
2015 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28502988 |
| L(1)-Regularized Least Squares for Support Recovery of High Dimensional Single Index Models with Gaussian Designs. |
Neykov M, Liu JS, Cai T |
Journal of machine learning research : JMLR |
28503101 |
J Mach Learn Res |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/28503101 |
| Analysis of multiple diverse phenotypes via semiparametric canonical correlation analysis. |
Agniel D, Cai T |
Biometrics |
28407213 |
Biometrics |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/28407213 |
| County-level assessment of United States kindergarten vaccination rates for measles mumps rubella (MMR) for the 2014-2015 school year. |
Kluberg SA, McGinnis DP, Hswen Y, Majumder MS, Santillana M, Brownstein JS |
Vaccine |
29037574 |
Vaccine |
2017 Nov 7 |
https://www.ncbi.nlm.nih.gov/pubmed/29037574 |
| Rcupcake: an R package for querying and analyzing biomedical data through the BD2K PIC-SURE RESTful API. |
Gutiérrez-Sacristán A, Guedj R, Korodi G, Stedman J, Furlong LI, Patel CJ, Kohane IS, Avillach P |
Bioinformatics (Oxford, England) |
29267850 |
Bioinformatics |
2018 Apr 15 |
https://www.ncbi.nlm.nih.gov/pubmed/29267850 |
| A general statistical framework for subgroup identification and comparative treatment scoring. |
Chen S, Tian L, Cai T, Yu M |
Biometrics |
28211943 |
Biometrics |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/28211943 |
| Augmented estimation for t-year survival with censored regression models. |
Zheng Y, Cai T |
Biometrics |
28294286 |
Biometrics |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/28294286 |
| Structured Matrix Completion with Applications to Genomic Data Integration. |
Cai T, Cai TT, Zhang A |
Journal of the American Statistical Association |
28042188 |
J Am Stat Assoc |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/28042188 |
| What's in a Note? Unpacking Predictive Value in Clinical Note Representations. |
Boag W, Doss D, Naumann T, Szolovits P |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
29888035 |
AMIA Jt Summits Transl Sci Proc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29888035 |
| Two-Sample Tests for High-Dimensional Linear Regression with an Application to Detecting Interactions. |
Xia Y, Cai T, Cai TT |
Statistica Sinica |
29386856 |
Stat Sin |
2018 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/29386856 |
| Investigating inequities in hospital care among lesbian, gay, bisexual, and transgender (LGBT) individuals using social media. |
Hswen Y, Sewalk KC, Alsentzer E, Tuli G, Brownstein JS, Hawkins JB |
Social science & medicine (1982) |
30219749 |
Soc Sci Med |
2018 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/30219749 |
| Biomedical informatics and machine learning for clinical genomics. |
Diao JA, Kohane IS, Manrai AK |
Human molecular genetics |
29566172 |
Hum Mol Genet |
2018 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29566172 |
| Phenome-Wide Association Study of Autoantibodies to Citrullinated and Noncitrullinated Epitopes in Rheumatoid Arthritis. |
Liao KP, Sparks JA, Hejblum BP, Kuo IH, Cui J, Lahey LJ, Cagan A, Gainer VS, Liu W, Cai TT, Sokolove J, Cai T |
Arthritis & rheumatology (Hoboken, N.J.) |
27792870 |
Arthritis Rheumatol |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/27792870 |
| Surrogate-assisted feature extraction for high-throughput phenotyping. |
Yu S, Chakrabortty A, Liao KP, Cai T, Ananthakrishnan AN, Gainer VS, Churchill SE, Szolovits P, Murphy SN, Kohane IS, Cai T |
Journal of the American Medical Informatics Association : JAMIA |
27632993 |
J Am Med Inform Assoc |
2017 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27632993 |
| MeSHDD: Literature-based drug-drug similarity for drug repositioning. |
Brown AS, Patel CJ |
Journal of the American Medical Informatics Association : JAMIA |
27678460 |
J Am Med Inform Assoc |
2017 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27678460 |
| Decreased Total Iron Binding Capacity May Correlate with Ruptured Intracranial Aneurysms. |
Can A, Lai PMR, Castro VM, Yu S, Dligach D, Finan S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R |
Scientific reports |
30988354 |
Sci Rep |
2019 Apr 15 |
https://www.ncbi.nlm.nih.gov/pubmed/30988354 |
| Systematic correlation of environmental exposure and physiological and self-reported behaviour factors with leukocyte telomere length. |
Patel CJ, Manrai AK, Corona E, Kohane IS |
International journal of epidemiology |
27059547 |
Int J Epidemiol |
2017 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27059547 |
| High-throughput multimodal automated phenotyping (MAP) with application to PheWAS. |
Liao KP, Sun J, Cai TA, Link N, Hong C, Huang J, Huffman JE, Gronsbell J, Zhang Y, Ho YL, Castro V, Gainer V, Murphy SN, O'Donnell CJ, Gaziano JM, Cho K, Szolovits P, Kohane IS, Yu S, Cai T |
Journal of the American Medical Informatics Association : JAMIA |
31613361 |
J Am Med Inform Assoc |
2019 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31613361 |
| Prediction of chronological and biological age from laboratory data. |
Sagers L, Melas-Kyriazi L, Patel CJ, Manrai AK |
Aging |
32391803 |
Aging (Albany NY) |
2020 May 5 |
https://www.ncbi.nlm.nih.gov/pubmed/32391803 |
| Use of social media to assess the impact of equitable state policies on LGBTQ patient experiences: An exploratory study. |
Hswen Y, Zhang A, Sewalk K, Tuli G, Brownstein JS, Hawkins JB |
Healthcare (Amsterdam, Netherlands) |
32241681 |
Healthc (Amst) |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/32241681 |
| Risk of Type 2 Diabetes Is Lower in US Adults Taking Chromium-Containing Supplements. |
McIver DJ, Grizales AM, Brownstein JS, Goldfine AB |
The Journal of nutrition |
26446484 |
J Nutr |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/26446484 |
| A predictive enrichment procedure to identify potential responders to a new therapy for randomized, comparative controlled clinical studies. |
Li J, Zhao L, Tian L, Cai T, Claggett B, Callegaro A, Dizier B, Spiessens B, Ulloa-Montoya F, Wei LJ |
Biometrics |
26689167 |
Biometrics |
2016 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26689167 |
| Bridging semantics and syntax with graph algorithms-state-of-the-art of extracting biomedical relations. |
Luo Y, Uzuner Ö, Szolovits P |
Briefings in bioinformatics |
26851224 |
Brief Bioinform |
2017 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/26851224 |
| Prioritizing individual genetic variants after kernel machine testing using variable selection. |
He Q, Cai T, Liu Y, Zhao N, Harmon QE, Almli LM, Binder EB, Engel SM, Ressler KJ, Conneely KN, Lin X, Wu MC |
Genetic epidemiology |
27488097 |
Genet Epidemiol |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27488097 |
| Environment-Wide Association Study of Blood Pressure in the National Health and Nutrition Examination Survey (1999-2012). |
McGinnis DP, Brownstein JS, Patel CJ |
Scientific reports |
27457472 |
Sci Rep |
2016 Jul 26 |
https://www.ncbi.nlm.nih.gov/pubmed/27457472 |
| REPRODUCIBLE AND SHAREABLE QUANTIFICATIONS OF PATHOGENICITY. |
Manrai AK, Wang BL, Patel CJ, Kohane IS |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
26776189 |
Pac Symp Biocomput |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/26776189 |
| Efficient Queries of Stand-off Annotations for Natural Language Processing on Electronic Medical Records. |
Luo Y, Szolovits P |
Biomedical informatics insights |
27478379 |
Biomed Inform Insights |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27478379 |
| Tobacco use and age are associated with different morphologic features of anterior communicating artery aneurysms. |
Zhang J, Lai PMR, Can A, Mukundan S, Castro VM, Dligach D, Finan S, Gainer VS, Shadick NA, Savova G, Murphy SN, Cai T, Weiss ST, Du R |
Scientific reports |
33637879 |
Sci Rep |
2021 Feb 26 |
https://www.ncbi.nlm.nih.gov/pubmed/33637879 |
| The Exposome Research Paradigm: an Opportunity to Understand the Environmental Basis for Human Health and Disease. |
Buck Louis GM, Smarr MM, Patel CJ |
Current environmental health reports |
28194614 |
Curr Environ Health Rep |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28194614 |
| Predictive Modeling of Physician-Patient Dynamics That Influence Sleep Medication Prescriptions and Clinical Decision-Making. |
Beam AL, Kartoun U, Pai JK, Chatterjee AK, Fitzgerald TP, Shaw SY, Kohane IS |
Scientific reports |
28181568 |
Sci Rep |
2017 Feb 9 |
https://www.ncbi.nlm.nih.gov/pubmed/28181568 |
| The digital phenotype. |
Jain SH, Powers BW, Hawkins JB, Brownstein JS |
Nature biotechnology |
25965751 |
Nat Biotechnol |
2015 May |
https://www.ncbi.nlm.nih.gov/pubmed/25965751 |
| Gene expression analysis in Fmr1KO mice identifies an immunological signature in brain tissue and mGluR5-related signaling in primary neuronal cultures. |
Prilutsky D, Kho AT, Palmer NP, Bhakar AL, Smedemark-Margulies N, Kong SW, Margulies DM, Bear MF, Kohane IS |
Molecular autism |
26697163 |
Mol Autism |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26697163 |
| Lipid-Lowering Agents and High HDL (High-Density Lipoprotein) Are Inversely Associated With Intracranial Aneurysm Rupture. |
Can A, Castro VM, Dligach D, Finan S, Yu S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R |
Stroke |
29622625 |
Stroke |
2018 May |
https://www.ncbi.nlm.nih.gov/pubmed/29622625 |
| PheProb: probabilistic phenotyping using diagnosis codes to improve power for genetic association studies. |
Sinnott JA, Cai F, Yu S, Hejblum BP, Hong C, Kohane IS, Liao KP |
Journal of the American Medical Informatics Association : JAMIA |
29788308 |
J Am Med Inform Assoc |
2018 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29788308 |
| Robust Dynamic Risk Prediction with Longitudinal Studies. |
Zhou QM, Dai W, Zheng Y, Cai T |
Statistical theory and related fields |
29335682 |
Stat Theory Relat Fields |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29335682 |
| Enabling phenotypic big data with PheNorm. |
Yu S, Ma Y, Gronsbell J, Cai T, Ananthakrishnan AN, Gainer VS, Churchill SE, Szolovits P, Murphy SN, Kohane IS, Liao KP, Cai T |
Journal of the American Medical Informatics Association : JAMIA |
29126253 |
J Am Med Inform Assoc |
2018 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29126253 |
| Multiple Testing of Submatrices of a Precision Matrix with Applications to Identification of Between Pathway Interactions. |
Xia Y, Cai T, Cai TT |
Journal of the American Statistical Association |
29881130 |
J Am Stat Assoc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29881130 |
| Biases in electronic health record data due to processes within the healthcare system: retrospective observational study. |
Agniel D, Kohane IS, Weber GM |
BMJ (Clinical research ed.) |
29712648 |
BMJ |
2018 Apr 30 |
https://www.ncbi.nlm.nih.gov/pubmed/29712648 |
| Low Serum Calcium and Magnesium Levels and Rupture of Intracranial Aneurysms. |
Can A, Rudy RF, Castro VM, Dligach D, Finan S, Yu S, Gainer V, Shadick NA, Savova G, Murphy S, Cai T, Weiss ST, Du R |
Stroke |
29844027 |
Stroke |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29844027 |
| Predicting Social Anxiety Treatment Outcome Based on Therapeutic Email Conversations. |
Hoogendoorn M, Berger T, Schulz A, Stolz T, Szolovits P |
IEEE journal of biomedical and health informatics |
27542187 |
IEEE J Biomed Health Inform |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/27542187 |
| Kernel machine score test for pathway analysis in the presence of semi-competing risks. |
Neykov M, Hejblum BP, Sinnott JA |
Statistical methods in medical research |
27255336 |
Stat Methods Med Res |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/27255336 |
| A review of validation strategies for computational drug repositioning. |
Brown AS, Patel CJ |
Briefings in bioinformatics |
27881429 |
Brief Bioinform |
2018 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27881429 |
| Perspective: Beyond the genome. |
Leppert J, Patel C |
Nature |
27626778 |
Nature |
2016 Sep 15 |
https://www.ncbi.nlm.nih.gov/pubmed/27626778 |
| Feature extraction for phenotyping from semantic and knowledge resources. |
Ning W, Chan S, Beam A, Yu M, Geva A, Liao K, Mullen M, Mandl KD, Kohane I, Cai T, Yu S |
Journal of biomedical informatics |
30738949 |
J Biomed Inform |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30738949 |
| Using Twitter to Detect Psychological Characteristics of Self-Identified Persons With Autism Spectrum Disorder: A Feasibility Study. |
Hswen Y, Gopaluni A, Brownstein JS, Hawkins JB |
JMIR mHealth and uHealth |
30747718 |
JMIR Mhealth Uhealth |
2019 Feb 12 |
https://www.ncbi.nlm.nih.gov/pubmed/30747718 |
| Probabilistic record linkage of de-identified research datasets with discrepancies using diagnosis codes. |
Hejblum BP, Weber GM, Liao KP, Palmer NP, Churchill S, Shadick NA, Szolovits P, Murphy SN, Kohane IS, Cai T |
Scientific data |
30620344 |
Sci Data |
2019 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/30620344 |
| Monitoring Online Discussions About Suicide Among Twitter Users With Schizophrenia: Exploratory Study. |
Hswen Y, Naslund JA, Brownstein JS, Hawkins JB |
JMIR mental health |
30545811 |
JMIR Ment Health |
2018 Dec 13 |
https://www.ncbi.nlm.nih.gov/pubmed/30545811 |
| Assessing the value of a censored surrogate outcome. |
Parast L, Tian L, Cai T |
Lifetime data analysis |
30980316 |
Lifetime Data Anal |
2020 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30980316 |
| Family history as the strongest predictor of aortic and peripheral aneurysms in patients with intracranial aneurysms. |
Lai PMR, Akama-Garren E, Can A, Tirado SR, Castro VM, Dligach D, Finan S, Gainer VS, Shadick NA, Savova G, Murphy SN, Cai T, Weiss ST, Du R |
Journal of clinical neuroscience : official journal of the Neurosurgical Society of Australasia |
38870642 |
J Clin Neurosci |
2024 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/38870642 |
| Investigation of Geographic and Macrolevel Variations in LGBTQ Patient Experiences: Longitudinal Social Media Analysis. |
Hswen Y, Zhang A, Sewalk KC, Tuli G, Brownstein JS, Hawkins JB |
Journal of medical Internet research |
33137713 |
J Med Internet Res |
2020 Jul 31 |
https://www.ncbi.nlm.nih.gov/pubmed/33137713 |
| Phenome-wide profiling identifies genotype-phenotype associations in Phelan-McDermid syndrome using family-sourced data from an international registry. |
Yin R, Wack M, Hassen-Khodja C, McDuffie MT, Bliss G, Horn EJ, Kothari C, McLarney B, Davis R, Hanson K, O'Boyle M, Betancur C, Avillach P |
Molecular autism |
39350236 |
Mol Autism |
2024 Sep 30 |
https://www.ncbi.nlm.nih.gov/pubmed/39350236 |
| Structured learning for spatial information extraction from biomedical text: bacteria biotopes. |
Kordjamshidi P, Roth D, Moens MF |
BMC bioinformatics |
25909637 |
BMC Bioinformatics |
2015 Apr 25 |
https://www.ncbi.nlm.nih.gov/pubmed/25909637 |
| Computational discovery of transcription factors associated with drug response. |
Hanson C, Cairns J, Wang L, Sinha S |
The pharmacogenomics journal |
26503816 |
Pharmacogenomics J |
2016 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26503816 |
| Graph Regularized Meta-path Based Transductive Regression in Heterogeneous Information Network. |
Wan M, Ouyang Y, Kaplan L, Han J |
Proceedings of the ... SIAM International Conference on Data Mining. SIAM International Conference on Data Mining |
26705510 |
Proc SIAM Int Conf Data Min |
2015 Apr-May |
https://www.ncbi.nlm.nih.gov/pubmed/26705510 |
| Liberal Entity Extraction: Rapid Construction of Fine-Grained Entity Typing Systems. |
Huang L, May J, Pan X, Ji H, Ren X, Han J, Zhao L, Hendler JA |
Big data |
28328252 |
Big Data |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28328252 |
| Data-Driven Contextual Valence Shifter Quantification for Multi-Theme Sentiment Analysis. |
Yu H, Shang J, Hsu M, Castellanos M, Han J |
Proceedings of the ... ACM International Conference on Information & Knowledge Management. ACM International Conference on Information and Knowledge Management |
28232874 |
Proc ACM Int Conf Inf Knowl Manag |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28232874 |
| AspEm: Embedding Learning by Aspects in Heterogeneous Information Networks. |
Shi Y, Gui H, Zhu Q, Kaplan L, Han J |
Proceedings of the ... SIAM International Conference on Data Mining. SIAM International Conference on Data Mining |
30221081 |
Proc SIAM Int Conf Data Min |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30221081 |
| Genetic analysis of neurodegenerative diseases in a pathology cohort. |
Blauwendraat C, Pletnikova O, Geiger JT, Murphy NA, Abramzon Y, Rudow G, Mamais A, Sabir MS, Crain B, Ahmed S, Rosenthal LS, Bakker CC, Faghri F, Chia R, Ding J, Dawson TM, Pantelyat A, Albert MS, Nalls MA, Resnick SM, Ferrucci L, Cookson MR, Hillis AE, Troncoso JC, Scholz SW |
Neurobiology of aging |
30528841 |
Neurobiol Aging |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30528841 |
| Framing Electronic Medical Records as Polylingual Documents in Query Expansion. |
Huang EW, Wang S, Lee DJ, Zhang R, Liu B, Zhou X, Zhai C |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
29854161 |
AMIA Annu Symp Proc |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29854161 |
| A closer look at cross-validation for assessing the accuracy of gene regulatory networks and models. |
Tabe-Bordbar S, Emad A, Zhao SD, Sinha S |
Scientific reports |
29700343 |
Sci Rep |
2018 Apr 26 |
https://www.ncbi.nlm.nih.gov/pubmed/29700343 |
| Targeted sequencing identifies a missense variant in the BEST3 gene associated with antihypertensive response to hydrochlorothiazide. |
Singh S, Wang Z, Shahin MH, Langaee TY, Gong Y, Turner ST, Chapman AB, Gums JG, McDonough CW, Bailey KR, Beitelshees AL, Cooper-DeHoff RM, Scherer S, Boerwinkle E, Johnson JA |
Pharmacogenetics and genomics |
30289819 |
Pharmacogenet Genomics |
2018 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30289819 |
| SigMat: a classification scheme for gene signature matching. |
Xiao J, Blatti C, Sinha S |
Bioinformatics (Oxford, England) |
29950002 |
Bioinformatics |
2018 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29950002 |
| ClusType: Effective Entity Recognition and Typing by Relation Phrase-Based Clustering. |
Ren X, El-Kishky A, Wang C, Tao F, Voss CR, Ji H, Han J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
26705503 |
KDD |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26705503 |
| Automatic Entity Recognition and Typing from Massive Text Corpora: A Phrase and Network Mining Approach. |
Ren X, El-Kishky A, Wang C, Han J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
26705508 |
KDD |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26705508 |
| Robust Classification of Information Networks by Consistent Graph Learning. |
Zhi S, Han J, Gu Q |
Machine learning and knowledge discovery in databases : European Conference, ECML PKDD ... : proceedings. ECML PKDD (Conference) |
26705541 |
Mach Learn Knowl Discov Databases |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26705541 |
| TOPTRAC: Topical Trajectory Pattern Mining. |
Kim Y, Han J, Yuan C |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
26709365 |
KDD |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26709365 |
| SeeDB: Efficient Data-Driven Visualization Recommendations to Support Visual Analytics. |
Vartak M, Rahman S, Madden S, Parameswaran A, Polyzotis N |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
26779379 |
Proceedings VLDB Endowment |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26779379 |
| Rapid Sampling for Visualizations with Ordering Guarantees. |
Kim A, Blais E, Parameswaran A, Indyk P, Madden S, Rubinfeld R |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
26779380 |
Proceedings VLDB Endowment |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/26779380 |
| Collaborative Data Analytics with DataHub. |
Bhardwaj A, Karger D, Subramanyam H, Deshpande A, Madden S, Wu E, Elmore A, Parameswaran A, Zhang R |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
26844007 |
Proceedings VLDB Endowment |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26844007 |
| Knowledge-guided gene prioritization reveals new insights into the mechanisms of chemoresistance. |
Emad A, Cairns J, Kalari KR, Wang L, Sinha S |
Genome biology |
28800781 |
Genome Biol |
2017 Aug 11 |
https://www.ncbi.nlm.nih.gov/pubmed/28800781 |
| Principles of Dataset Versioning: Exploring the Recreation/Storage Tradeoff. |
Bhattacherjee S, Chavan A, Huang S, Deshpande A, Parameswaran A |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
28752014 |
Proceedings VLDB Endowment |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28752014 |
| DPPred: An Effective Prediction Framework with Concise Discriminative Patterns. |
Shang J, Jiang M, Tong W, Xiao J, Peng J, Han J, Pooled Resource Open-Access ALS Clinical Trials Consortium* |
IEEE transactions on knowledge and data engineering |
30745791 |
IEEE Trans Knowl Data Eng |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30745791 |
| Pilot Study of Metabolomic Clusters as State Markers of Major Depression and Outcomes to CBT Treatment. |
Bhattacharyya S, Dunlop BW, Mahmoudiandehkordi S, Ahmed AT, Louie G, Frye MA, Weinshilboum RM, Krishnan RR, Rush AJ, Mayberg HS, Craighead WE, Kaddurah-Daouk R |
Frontiers in neuroscience |
31572108 |
Front Neurosci |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31572108 |
| NetDecoder: a network biology platform that decodes context-specific biological networks and gene activities. |
da Rocha EL, Ung CY, McGehee CD, Correia C, Li H |
Nucleic acids research |
26975659 |
Nucleic Acids Res |
2016 Jun 2 |
https://www.ncbi.nlm.nih.gov/pubmed/26975659 |
| A role for the bacterial GATC methylome in antibiotic stress survival. |
Cohen NR, Ross CA, Jain S, Shapiro RS, Gutierrez A, Belenky P, Li H, Collins JJ |
Nature genetics |
26998690 |
Nat Genet |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/26998690 |
| Mining Multi-Aspect Reflection of News Events in Twitter: Discovery, Linking and Presentation. |
Wang J, Tong W, Yu H, Li M, Ma X, Cai H, Hanratty T, Han J |
Proceedings. IEEE International Conference on Data Mining |
27034625 |
Proc IEEE Int Conf Data Min |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/27034625 |
| KnowSim: A Document Similarity Measure on Structured Heterogeneous Information Networks. |
Wang C, Song Y, Li H, Zhang M, Han J |
Proceedings. IEEE International Conference on Data Mining |
27034626 |
Proc IEEE Int Conf Data Min |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/27034626 |
| Machine Reading for Extraction of Bacteria and Habitat Taxonomies. |
Kordjamshidi P, Massa W, Provoost T, Moens MF |
Biomedical engineering systems and technologies, international joint conference, BIOSTEC ... revised selected papers. BIOSTEC (Conference) |
27077141 |
Biomed Eng Syst Technol Int Jt Conf BIOSTEC Revis Sel Pap |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/27077141 |
| Big Data: Astronomical or Genomical? |
Stephens ZD, Lee SY, Faghri F, Campbell RH, Zhai C, Efron MJ, Iyer R, Schatz MC, Sinha S, Robinson GE |
PLoS biology |
26151137 |
PLoS Biol |
2015 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/26151137 |
| A network-based phenotype mapping approach to identify genes that modulate drug response phenotypes. |
Cairns J, Ung CY, da Rocha EL, Zhang C, Correia C, Weinshilboum R, Wang L, Li H |
Scientific reports |
27841317 |
Sci Rep |
2016 Nov 14 |
https://www.ncbi.nlm.nih.gov/pubmed/27841317 |
| ABC-GWAS: Functional Annotation of Estrogen Receptor-Positive Breast Cancer Genetic Variants. |
Manjunath M, Zhang Y, Zhang S, Roy S, Perez-Pinera P, Song JS |
Frontiers in genetics |
32765587 |
Front Genet |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32765587 |
| ClusterEnG: an interactive educational web resource for clustering and visualizing high-dimensional data. |
Manjunath M, Zhang Y, Yeo SH, Sobh O, Russell N, Followell C, Bushell C, Ravaioli U, Song JS |
PeerJ. Computer science |
30906871 |
PeerJ Comput Sci |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30906871 |
| Interaction Between SNP Genotype and Efficacy of Anastrozole and Exemestane in Early-Stage Breast Cancer. |
Cairns J, Kalari KR, Ingle JN, Shepherd LE, Ellis MJ, Goss PE, Barman P, Carlson EE, Goodnature B, Goetz MP, Weinshilboum RM, Gao H, Wang L |
Clinical pharmacology and therapeutics |
34048027 |
Clin Pharmacol Ther |
2021 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/34048027 |
| An integrated multi-omics approach to identify regulatory mechanisms in cancer metastatic processes. |
Ghaffari S, Hanson C, Schmidt RE, Bouchonville KJ, Offer SM, Sinha S |
Genome biology |
33413550 |
Genome Biol |
2021 Jan 7 |
https://www.ncbi.nlm.nih.gov/pubmed/33413550 |
| Typing tumors using pathways selected by somatic evolution. |
Wang S, Ma J, Zhang W, Shen JP, Huang J, Peng J, Ideker T |
Nature communications |
30297789 |
Nat Commun |
2018 Oct 8 |
https://www.ncbi.nlm.nih.gov/pubmed/30297789 |
| Ketamine and ketamine metabolites as novel estrogen receptor ligands: Induction of cytochrome P450 and AMPA glutamate receptor gene expression. |
Ho MF, Correia C, Ingle JN, Kaddurah-Daouk R, Wang L, Kaufmann SH, Weinshilboum RM |
Biochemical pharmacology |
29621538 |
Biochem Pharmacol |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29621538 |
| Phrase mining of textual data to analyze extracellular matrix protein patterns across cardiovascular disease. |
Liem DA, Murali S, Sigdel D, Shi Y, Wang X, Shen J, Choi H, Caufield JH, Wang W, Ping P, Han J |
American journal of physiology. Heart and circulatory physiology |
29775406 |
Am J Physiol Heart Circ Physiol |
2018 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29775406 |
| Cross-species systems analysis of evolutionary toolkits of neurogenomic response to social challenge. |
Saul MC, Blatti C, Yang W, Bukhari SA, Shpigler HY, Troy JM, Seward CH, Sloofman L, Chandrasekaran S, Bell AM, Stubbs L, Robinson GE, Zhao SD, Sinha S |
Genes, brain, and behavior |
29968347 |
Genes Brain Behav |
2019 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/29968347 |
| The Role of the Aryl Hydrocarbon Receptor (AHR) in Immune and Inflammatory Diseases. |
Neavin DR, Liu D, Ray B, Weinshilboum RM |
International journal of molecular sciences |
30513921 |
Int J Mol Sci |
2018 Dec 3 |
https://www.ncbi.nlm.nih.gov/pubmed/30513921 |
| SequencEnG: an interactive knowledge base of sequencing techniques. |
Zhang Y, Manjunath M, Kim Y, Heintz J, Song JS |
Bioinformatics (Oxford, England) |
30202870 |
Bioinformatics |
2019 Apr 15 |
https://www.ncbi.nlm.nih.gov/pubmed/30202870 |
| Identification of pathways associated with chemosensitivity through network embedding. |
Wang S, Huang E, Cairns J, Peng J, Wang L, Sinha S |
PLoS computational biology |
30893303 |
PLoS Comput Biol |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30893303 |
| Single Nucleotide Polymorphisms at a Distance from Aryl Hydrocarbon Receptor (AHR) Binding Sites Influence AHR Ligand-Dependent Gene Expression. |
Neavin DR, Lee JH, Liu D, Ye Z, Li H, Wang L, Ordog T, Weinshilboum RM |
Drug metabolism and disposition: the biological fate of chemicals |
31292129 |
Drug Metab Dispos |
2019 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/31292129 |
| Mining Quality Phrases from Massive Text Corpora. |
Liu J, Shang J, Wang C, Ren X, Han J |
Proceedings. ACM-SIGMOD International Conference on Management of Data |
26705375 |
Proc ACM SIGMOD Int Conf Manag Data |
2015 May-Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26705375 |
| On the Discovery of Evolving Truth. |
Li Y, Li Q, Gao J, Su L, Zhao B, Fan W, Han J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
26705502 |
KDD |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26705502 |
| Incorporating World Knowledge to Document Clustering via Heterogeneous Information Networks. |
Wang C, Song Y, El-Kishky A, Roth D, Zhang M, Han J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
26705504 |
KDD |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26705504 |
| Towards Interactive Construction of Topical Hierarchy: A Recursive Tensor Decomposition Approach. |
Wang C, Liu X, Song Y, Han J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
26705505 |
KDD |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26705505 |
| Saul: Towards Declarative Learning Based Programming. |
Kordjamshidi P, Roth D, Wu H |
IJCAI : proceedings of the conference |
26635465 |
IJCAI (U S) |
2015 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/26635465 |
| Smart Drill-Down: A New Data Exploration Operator. |
Joglekar M, Garcia-Molina H, Parameswaran A |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
26844008 |
Proceedings VLDB Endowment |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26844008 |
| Genome-wide association studies of drug response and toxicity: an opportunity for genome medicine. |
Giacomini KM, Yee SW, Mushiroda T, Weinshilboum RM, Ratain MJ, Kubo M |
Nature reviews. Drug discovery |
27885282 |
Nat Rev Drug Discov |
2017 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/27885282 |
| Query-Based Outlier Detection in Heterogeneous Information Networks. |
Kuck J, Zhuang H, Yan X, Cam H, Han J |
Advances in database technology : proceedings. International Conference on Extending Database Technology |
27064397 |
Adv Database Technol |
2015 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/27064397 |
| VisAGE: Integrating external knowledge into electronic medical record visualization. |
Huang EW, Wang S, Zhai C |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
29218916 |
Pac Symp Biocomput |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29218916 |
| Pharmacogenomic Discovery to Function and Mechanism: Breast Cancer as a Case Study. |
Wang L, Ingle J, Weinshilboum R |
Clinical pharmacology and therapeutics |
29052219 |
Clin Pharmacol Ther |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29052219 |
| Network-assisted target identification for haploinsufficiency and homozygous profiling screens. |
Wang S, Peng J |
PLoS computational biology |
28574983 |
PLoS Comput Biol |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28574983 |
| Representing Documents via Latent Keyphrase Inference. |
Liu J, Ren X, Shang J, Cassidy T, Voss CR, Han J |
Proceedings of the ... International World-Wide Web Conference. International WWW Conference |
28229132 |
Proc Int World Wide Web Conf |
2016 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/28229132 |
| Towards Globally Optimal Crowdsourcing Quality Management: The Uniform Worker Setting. |
Das Sarma A, Parameswaran A, Widom J |
Proceedings. ACM-SIGMOD International Conference on Management of Data |
28149000 |
Proc ACM SIGMOD Int Conf Manag Data |
2016 Jun-Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28149000 |
| Decibel: The Relational Dataset Branching System. |
Maddox M, Goehring D, Elmore AJ, Madden S, Parameswaran A, Deshpande A |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
28149668 |
Proceedings VLDB Endowment |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/28149668 |
| DPClass: An Effective but Concise Discriminative Patterns-Based Classification Framework. |
Shang J, Tong W, Peng J, Han J |
Proceedings of the ... SIAM International Conference on Data Mining. SIAM International Conference on Data Mining |
28163983 |
Proc SIAM Int Conf Data Min |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/28163983 |
| MACFP: Maximal Approximate Consecutive Frequent Pattern Mining under Edit Distance. |
Shang J, Peng J, Han J |
Proceedings of the ... SIAM International Conference on Data Mining. SIAM International Conference on Data Mining |
28174677 |
Proc SIAM Int Conf Data Min |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/28174677 |
| Alterations in acylcarnitines, amines, and lipids inform about the mechanism of action of citalopram/escitalopram in major depression. |
MahmoudianDehkordi S, Ahmed AT, Bhattacharyya S, Han X, Baillie RA, Arnold M, Skime MK, John-Williams LS, Moseley MA, Thompson JW, Louie G, Riva-Posse P, Craighead WE, McDonald W, Krishnan R, Rush AJ, Frye MA, Dunlop BW, Weinshilboum RM, Kaddurah-Daouk R, Mood Disorders Precision Medicine Consortium (MDPMC) |
Translational psychiatry |
33654056 |
Transl Psychiatry |
2021 Mar 2 |
https://www.ncbi.nlm.nih.gov/pubmed/33654056 |
| Functional analysis of low-grade glioma genetic variants predicts key target genes and transcription factors. |
Manjunath M, Yan J, Youn Y, Drucker KL, Kollmeyer TM, McKinney AM, Zazubovich V, Zhang Y, Costello JF, Eckel-Passow J, Selvin PR, Jenkins RB, Song JS |
Neuro-oncology |
33130899 |
Neuro Oncol |
2021 Apr 12 |
https://www.ncbi.nlm.nih.gov/pubmed/33130899 |
| Tissue-guided LASSO for prediction of clinical drug response using preclinical samples. |
Huang EW, Bhope A, Lim J, Sinha S, Emad A |
PLoS computational biology |
31967990 |
PLoS Comput Biol |
2020 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/31967990 |
| Pharmacogenomics: Precision Medicine and Drug Response. |
Weinshilboum RM, Wang L |
Mayo Clinic proceedings |
29101939 |
Mayo Clin Proc |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/29101939 |
| Embedding Learning with Events in Heterogeneous Information Networks. |
Gui H, Liu J, Tao F, Jiang M, Norick B, Kaplan L, Han J |
IEEE transactions on knowledge and data engineering |
29242698 |
IEEE Trans Knowl Data Eng |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/29242698 |
| PROSNET: INTEGRATING HOMOLOGY WITH MOLECULAR NETWORKS FOR PROTEIN FUNCTION PREDICTION. |
Wang S, Qu M, Peng J |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
27896959 |
Pac Symp Biocomput |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/27896959 |
| Dynamics of Large Multi-View Social Networks: Synergy, Cannibalization and Cross-View Interplay. |
Shi Y, Kim M, Chatterjee S, Tiwari M, Ghosh S, Rosales R |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
28203486 |
KDD |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28203486 |
| Interactive Data Exploration with Smart Drill-Down. |
Joglekar M, Garcia-Molina H, Parameswaran A |
Proceedings. International Conference on Data Engineering |
28210096 |
Proc Int Conf Data Eng |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/28210096 |
| GMove: Group-Level Mobility Modeling Using Geo-Tagged Social Media. |
Zhang C, Zhang K, Yuan Q, Zhang L, Hanratty T, Han J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
28163978 |
KDD |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28163978 |
| Integrative Genomic Analysis Predicts Causative Cis-Regulatory Mechanisms of the Breast Cancer-Associated Genetic Variant rs4415084. |
Zhang Y, Manjunath M, Zhang S, Chasman D, Roy S, Song JS |
Cancer research |
29351903 |
Cancer Res |
2018 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29351903 |
| Benefits of and Barriers to Pharmacogenomics-Guided Treatment for Major Depressive Disorder. |
Ahmed AT, Weinshilboum R, Frye MA |
Clinical pharmacology and therapeutics |
29388201 |
Clin Pharmacol Ther |
2018 May |
https://www.ncbi.nlm.nih.gov/pubmed/29388201 |
| HGT-ID: an efficient and sensitive workflow to detect human-viral insertion sites using next-generation sequencing data. |
Baheti S, Tang X, O'Brien DR, Chia N, Roberts LR, Nelson H, Boughey JC, Wang L, Goetz MP, Kocher JA, Kalari KR |
BMC bioinformatics |
30016933 |
BMC Bioinformatics |
2018 Jul 17 |
https://www.ncbi.nlm.nih.gov/pubmed/30016933 |
| PReP: Path-Based Relevance from a Probabilistic Perspective in Heterogeneous Information Networks. |
Shi Y, Chan PW, Zhuang H, Gui H, Han J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
30221026 |
KDD |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30221026 |
| Anastrozole Aromatase Inhibitor Plasma Drug Concentration Genome-Wide Association Study: Functional Epistatic Interaction Between SLC38A7 and ALPPL2. |
Dudenkov TM, Liu D, Cairns J, Devarajan S, Zhuang Y, Ingle JN, Buzdar AU, Robson ME, Kubo M, Batzler A, Barman P, Jenkins GD, Carlson EE, Goetz MP, Northfelt DW, Moreno-Aspitia A, Desta Z, Reid JM, Kalari KR, Wang L, Weinshilboum RM |
Clinical pharmacology and therapeutics |
30648747 |
Clin Pharmacol Ther |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30648747 |
| Cloud-Based Phrase Mining and Analysis of User-Defined Phrase-Category Association in Biomedical Publications. |
Sigdel D, Kyi V, Zhang A, Setty SP, Liem DA, Shi Y, Wang X, Shen J, Wang W, Han J, Ping P |
Journal of visualized experiments : JoVE |
30855564 |
J Vis Exp |
2019 Feb 23 |
https://www.ncbi.nlm.nih.gov/pubmed/30855564 |
| The Cancer-Associated Genetic Variant Rs3903072 Modulates Immune Cells in the Tumor Microenvironment. |
Zhang Y, Manjunath M, Yan J, Baur BA, Zhang S, Roy S, Song JS |
Frontiers in genetics |
31507631 |
Front Genet |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31507631 |
| Metabolomic signature of exposure and response to citalopram/escitalopram in depressed outpatients. |
Bhattacharyya S, Ahmed AT, Arnold M, Liu D, Luo C, Zhu H, Mahmoudiandehkordi S, Neavin D, Louie G, Dunlop BW, Frye MA, Wang L, Weinshilboum RM, Krishnan RR, Rush AJ, Kaddurah-Daouk R |
Translational psychiatry |
31273200 |
Transl Psychiatry |
2019 Jul 4 |
https://www.ncbi.nlm.nih.gov/pubmed/31273200 |
| KnowEnG: a knowledge engine for genomics. |
Sinha S, Song J, Weinshilboum R, Jongeneel V, Han J |
Journal of the American Medical Informatics Association : JAMIA |
26205246 |
J Am Med Inform Assoc |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26205246 |
| Superior breast cancer metastasis risk stratification using an epithelial-mesenchymal-amoeboid transition gene signature. |
Emad A, Ray T, Jensen TW, Parat M, Natrajan R, Sinha S, Ray PS |
Breast cancer research : BCR |
32641077 |
Breast Cancer Res |
2020 Jul 8 |
https://www.ncbi.nlm.nih.gov/pubmed/32641077 |
| Assembler: Efficient Discovery of Spatial Co-evolving Patterns in Massive Geo-sensory Data. |
Zhang C, Zheng Y, Ma X, Han J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
26705506 |
KDD |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26705506 |
| Leveraging Pattern Semantics for Extracting Entities in Enterprises. |
Tao F, Zhao B, Fuxman A, Li Y, Han J |
Proceedings of the ... International World-Wide Web Conference. International WWW Conference |
26705540 |
Proc Int World Wide Web Conf |
2015 May |
https://www.ncbi.nlm.nih.gov/pubmed/26705540 |
| DataSpread: Unifying Databases and Spreadsheets. |
Bendre M, Sun B, Zhang D, Zhou X, Chang KC, Parameswaran A |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
26900487 |
Proceedings VLDB Endowment |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26900487 |
| DeepMeSH: deep semantic representation for improving large-scale MeSH indexing. |
Peng S, You R, Wang H, Zhai C, Mamitsuka H, Zhu S |
Bioinformatics (Oxford, England) |
27307646 |
Bioinformatics |
2016 Jun 15 |
https://www.ncbi.nlm.nih.gov/pubmed/27307646 |
| Fast Inbound Top-K Query for Random Walk with Restart. |
Zhang C, Jiang S, Chen Y, Sun Y, Han J |
Machine learning and knowledge discovery in databases : European Conference, ECML PKDD ... : proceedings. ECML PKDD (Conference) |
26709392 |
Mach Learn Knowl Discov Databases |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26709392 |
| Unsupervised Word Embedding Learning by Incorporating Local and Global Contexts. |
Meng Y, Huang J, Wang G, Wang Z, Zhang C, Han J |
Frontiers in big data |
33693384 |
Front Big Data |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/33693384 |
| Anastrozole has an Association between Degree of Estrogen Suppression and Outcomes in Early Breast Cancer and is a Ligand for Estrogen Receptor α. |
Ingle JN, Cairns J, Suman VJ, Shepherd LE, Fasching PA, Hoskin TL, Singh RJ, Desta Z, Kalari KR, Ellis MJ, Goss PE, Chen BE, Volz B, Barman P, Carlson EE, Haddad T, Goetz MP, Goodnature B, Cuellar ME, Walters MA, Correia C, Kaufmann SH, Weinshilboum RM, Wang L |
Clinical cancer research : an official journal of the American Association for Cancer Research |
32098767 |
Clin Cancer Res |
2020 Jun 15 |
https://www.ncbi.nlm.nih.gov/pubmed/32098767 |
| Knowledge-guided analysis of "omics" data using the KnowEnG cloud platform. |
Blatti C 3rd, Emad A, Berry MJ, Gatzke L, Epstein M, Lanier D, Rizal P, Ge J, Liao X, Sobh O, Lambert M, Post CS, Xiao J, Groves P, Epstein AT, Chen X, Srinivasan S, Lehnert E, Kalari KR, Wang L, Weinshilboum RM, Song JS, Jongeneel CV, Han J, Ravaioli U, Sobh N, Bushell CB, Sinha S |
PLoS biology |
31971940 |
PLoS Biol |
2020 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/31971940 |
| Heterogeneous Network Representation Learning: A Unified Framework with Survey and Benchmark. |
Yang C, Xiao Y, Zhang Y, Sun Y, Han J |
IEEE transactions on knowledge and data engineering |
37915376 |
IEEE Trans Knowl Data Eng |
2022 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/37915376 |
| FacetGist: Collective Extraction of Document Facets in Large Technical Corpora. |
Siddiqui T, Ren X, Parameswaran A, Han J |
Proceedings of the ... ACM International Conference on Information & Knowledge Management. ACM International Conference on Information and Knowledge Management |
28210517 |
Proc ACM Int Conf Inf Knowl Manag |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28210517 |
| Transcriptional regulatory dynamics drive coordinated metabolic and neural response to social challenge in mice. |
Saul MC, Seward CH, Troy JM, Zhang H, Sloofman LG, Lu X, Weisner PA, Caetano-Anolles D, Sun H, Zhao SD, Chandrasekaran S, Sinha S, Stubbs L |
Genome research |
28356321 |
Genome Res |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28356321 |
| Optimizing Open-Ended Crowdsourcing: The Next Frontier in Crowdsourced Data Management. |
Parameswaran A, Sarma AD, Venkataraman V |
Bulletin of the Technical Committee on Data Engineering |
28951893 |
Bull Tech Comm Data Eng |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/28951893 |
| Mining Discriminative Patterns to Predict Health Status for Cardiopulmonary Patients. |
Cheng Q, Shang J, Juen J, Han J, Schatz B |
ACM-BCB ... ... : the ... ACM Conference on Bioinformatics, Computational Biology and Biomedicine. ACM Conference on Bioinformatics, Computational Biology and Biomedicine |
28174760 |
ACM BCB |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28174760 |
| Squish: Near-Optimal Compression for Archival of Relational Datasets. |
Gao Y, Parameswaran A |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
28180028 |
KDD |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28180028 |
| Modeling Truth Existence in Truth Discovery. |
Zhi S, Zhao B, Tong W, Gao J, Yu D, Ji H, Han J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
26705507 |
KDD |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26705507 |
| Debiasing Crowdsourced Batches. |
Zhuang H, Parameswaran A, Roth D, Han J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
26713175 |
KDD |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26713175 |
| Surpassing Humans and Computers with JellyBean: Crowd-Vision-Hybrid Counting Algorithms. |
Sarma AD, Jain A, Nandi A, Parameswaran A, Widom J |
Proceedings of the ... AAAI Conference on Human Computation and Crowdsourcing |
26844304 |
Proc AAAI Conf Hum Comput Crowdsourc |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26844304 |
| Exploiting ontology graph for predicting sparsely annotated gene function. |
Wang S, Cho H, Zhai C, Berger B, Peng J |
Bioinformatics (Oxford, England) |
26072504 |
Bioinformatics |
2015 Jun 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26072504 |
| Principled multi-omic analysis reveals gene regulatory mechanisms of phenotype variation. |
Hanson C, Cairns J, Wang L, Sinha S |
Genome research |
29898900 |
Genome Res |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29898900 |
| TeachEnG: a Teaching Engine for Genomics. |
Kim M, Kim Y, Qian L, Song JS |
Bioinformatics (Oxford, England) |
29028264 |
Bioinformatics |
2017 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/29028264 |
| PANOPLY: Omics-Guided Drug Prioritization Method Tailored to an Individual Patient. |
Kalari KR, Sinnwell JP, Thompson KJ, Tang X, Carlson EE, Yu J, Vedell PT, Ingle JN, Weinshilboum RM, Boughey JC, Wang L, Goetz MP, Suman V |
JCO clinical cancer informatics |
30652605 |
JCO Clin Cancer Inform |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30652605 |
| Pharmacokinetic-Pharmacodynamic interaction associated with venlafaxine-XR remission in patients with major depressive disorder with history of citalopram / escitalopram treatment failure. |
Ahmed AT, Biernacka JM, Jenkins G, Rush AJ, Shinozaki G, Veldic M, Kung S, Bobo WV, Hall-Flavin DK, Weinshilboum RM, Wang L, Frye MA |
Journal of affective disorders |
30578947 |
J Affect Disord |
2019 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30578947 |
| Augmentation of Physician Assessments with Multi-Omics Enhances Predictability of Drug Response: A Case Study of Major Depressive Disorder. |
Athreya A, Iyer R, Neavin D, Wang L, Weinshilboum R, Kaddurah-Daouk R, Rush J, Frye M, Bobo W |
IEEE computational intelligence magazine |
30467458 |
IEEE Comput Intell Mag |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30467458 |
| Automated Phrase Mining from Massive Text Corpora. |
Shang J, Liu J, Jiang M, Ren X, Voss CR, Han J |
IEEE transactions on knowledge and data engineering |
31105412 |
IEEE Trans Knowl Data Eng |
2018 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/31105412 |
| Uncovering Effective Explanations for Interactive Genomic Data Analysis. |
Huang S, Blatti C, Sinha S, Parameswaran A |
Patterns (New York, N.Y.) |
33205133 |
Patterns (N Y) |
2020 Sep 11 |
https://www.ncbi.nlm.nih.gov/pubmed/33205133 |
| Inference of phenotype-relevant transcriptional regulatory networks elucidates cancer type-specific regulatory mechanisms in a pan-cancer study. |
Emad A, Sinha S |
NPJ systems biology and applications |
33558504 |
NPJ Syst Biol Appl |
2021 Feb 8 |
https://www.ncbi.nlm.nih.gov/pubmed/33558504 |
| TNNI1, TNNI2 and TNNI3: Evolution, regulation, and protein structure-function relationships. |
Sheng JJ, Jin JP |
Gene |
26526134 |
Gene |
2016 Jan 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26526134 |
| Structure and function of cardiac troponin C (TNNC1): Implications for heart failure, cardiomyopathies, and troponin modulating drugs. |
Li MX, Hwang PM |
Gene |
26232335 |
Gene |
2015 Oct 25 |
https://www.ncbi.nlm.nih.gov/pubmed/26232335 |
| The cardiac sodium channel gene SCN5A and its gene product NaV1.5: Role in physiology and pathophysiology. |
Veerman CC, Wilde AA, Lodder EM |
Gene |
26361848 |
Gene |
2015 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26361848 |
| Temporally Factorized Network Modeling for Evolutionary Network Analysis. |
Yu W, Aggarwal CC, Wang W |
Proceedings of the ... International Conference on Web Search & Data Mining. International Conference on Web Search & Data Mining |
28626845 |
Proc Int Conf Web Search Data Min |
2017 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/28626845 |
| Discovering and linking public omics data sets using the Omics Discovery Index. |
Perez-Riverol Y, Bai M, da Veiga Leprevost F, Squizzato S, Park YM, Haug K, Carroll AJ, Spalding D, Paschall J, Wang M, Del-Toro N, Ternent T, Zhang P, Buso N, Bandeira N, Deutsch EW, Campbell DS, Beavis RC, Salek RM, Sarkans U, Petryszak R, Keays M, Fahy E, Sud M, Subramaniam S, Barbera A, Jiménez RC, Nesvizhskii AI, Sansone SA, Steinbeck C, Lopez R, Vizcaíno JA, Ping P, Hermjakob H |
Nature biotechnology |
28486464 |
Nat Biotechnol |
2017 May 9 |
https://www.ncbi.nlm.nih.gov/pubmed/28486464 |
| Mutation of WIF1: a potential novel cause of a Nail-Patella-like disorder. |
Jones MC, Topol SE, Rueda M, Oliveira G, Phillips T, Spencer EG, Torkamani A |
Genetics in medicine : official journal of the American College of Medical Genetics |
28383544 |
Genet Med |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28383544 |
| HSPA5 Gene encoding Hsp70 chaperone BiP in the endoplasmic reticulum. |
Wang J, Lee J, Liem D, Ping P |
Gene |
28286085 |
Gene |
2017 Jun 30 |
https://www.ncbi.nlm.nih.gov/pubmed/28286085 |
| WikiGenomes: an open web application for community consumption and curation of gene annotation data in Wikidata. |
Putman TE, Lelong S, Burgstaller-Muehlbacher S, Waagmeester A, Diesh C, Dunn N, Munoz-Torres M, Stupp GS, Wu C, Su AI, Good BM |
Database : the journal of biological databases and curation |
28365742 |
Database (Oxford) |
2017 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28365742 |
| Envisioning the future of 'big data' biomedicine. |
Bui AAT, Van Horn JD, NIH BD2K Centers Consortium |
Journal of biomedical informatics |
28366789 |
J Biomed Inform |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/28366789 |
| Adapting extracellular matrix proteomics for clinical studies on cardiac remodeling post-myocardial infarction. |
Lindsey ML, Hall ME, Harmancey R, Ma Y |
Clinical proteomics |
27651752 |
Clin Proteomics |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27651752 |
| A Metadata Extraction Approach for Clinical Case Reports to Enable Advanced Understanding of Biomedical Concepts. |
Caufield JH, Liem DA, Garlid AO, Zhou Y, Watson K, Bui AAT, Wang W, Ping P |
Journal of visualized experiments : JoVE |
30295669 |
J Vis Exp |
2018 Sep 20 |
https://www.ncbi.nlm.nih.gov/pubmed/30295669 |
| Mapping macrophage polarization over the myocardial infarction time continuum. |
Mouton AJ, DeLeon-Pennell KY, Rivera Gonzalez OJ, Flynn ER, Freeman TC, Saucerman JJ, Garrett MR, Ma Y, Harmancey R, Lindsey ML |
Basic research in cardiology |
29868933 |
Basic Res Cardiol |
2018 Jun 4 |
https://www.ncbi.nlm.nih.gov/pubmed/29868933 |
| A primer on deep learning in genomics. |
Zou J, Huss M, Abid A, Mohammadi P, Torkamani A, Telenti A |
Nature genetics |
30478442 |
Nat Genet |
2019 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/30478442 |
| A reference set of curated biomedical data and metadata from clinical case reports. |
Caufield JH, Zhou Y, Garlid AO, Setty SP, Liem DA, Cao Q, Lee JM, Murali S, Spendlove S, Wang W, Zhang L, Sun Y, Bui A, Hermjakob H, Watson KE, Ping P |
Scientific data |
30457569 |
Sci Data |
2018 Nov 20 |
https://www.ncbi.nlm.nih.gov/pubmed/30457569 |
| LRP5: A novel anti-inflammatory macrophage marker that positively regulates migration and phagocytosis. |
Ma Y |
Journal of molecular and cellular cardiology |
26739212 |
J Mol Cell Cardiol |
2016 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/26739212 |
| Long Noncoding RNA Discovery in Cardiovascular Disease: Decoding Form to Function. |
Sallam T, Sandhu J, Tontonoz P |
Circulation research |
29301847 |
Circ Res |
2018 Jan 5 |
https://www.ncbi.nlm.nih.gov/pubmed/29301847 |
| The Implicitome: A Resource for Rationalizing Gene-Disease Associations. |
Hettne KM, Thompson M, van Haagen HH, van der Horst E, Kaliyaperumal R, Mina E, Tatum Z, Laros JF, van Mulligen EM, Schuemie M, Aten E, Li TS, Bruskiewich R, Good BM, Su AI, Kors JA, den Dunnen J, van Ommen GJ, Roos M, 't Hoen PA, Mons B, Schultes EA |
PloS one |
26919047 |
PLoS One |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/26919047 |
| Reactome from a WikiPathways Perspective. |
Bohler A, Wu G, Kutmon M, Pradhana LA, Coort SL, Hanspers K, Haw R, Pico AR, Evelo CT |
PLoS computational biology |
27203685 |
PLoS Comput Biol |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/27203685 |
| Long Noncoding RNA Facilitated Gene Therapy Reduces Atherosclerosis in a Murine Model of Familial Hypercholesterolemia. |
Tontonoz P, Wu X, Jones M, Zhang Z, Salisbury D, Sallam T |
Circulation |
28827223 |
Circulation |
2017 Aug 22 |
https://www.ncbi.nlm.nih.gov/pubmed/28827223 |
| KCNE4 and KCNE5: K(+) channel regulation and cardiac arrhythmogenesis. |
Abbott GW |
Gene |
27484720 |
Gene |
2016 Nov 30 |
https://www.ncbi.nlm.nih.gov/pubmed/27484720 |
| Proteomic analysis of the cardiac extracellular matrix: clinical research applications. |
Lindsey ML, Jung M, Hall ME, DeLeon-Pennell KY |
Expert review of proteomics |
29285949 |
Expert Rev Proteomics |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29285949 |
| Reactome graph database: Efficient access to complex pathway data. |
Fabregat A, Korninger F, Viteri G, Sidiropoulos K, Marin-Garcia P, Ping P, Wu G, Stein L, D'Eustachio P, Hermjakob H |
PLoS computational biology |
29377902 |
PLoS Comput Biol |
2018 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/29377902 |
| Exploring applications of crowdsourcing to cryo-EM. |
Bruggemann J, Lander GC, Su AI |
Journal of structural biology |
29486249 |
J Struct Biol |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29486249 |
| Plant Reactome and PubChem: The Plant Pathway and (Bio)Chemical Entity Knowledgebases. |
Gupta P, Naithani S, Preece J, Kim S, Cheng T, D'Eustachio P, Elser J, Bolton EE, Jaiswal P |
Methods in molecular biology (Clifton, N.J.) |
35037224 |
Methods Mol Biol |
2022 |
https://www.ncbi.nlm.nih.gov/pubmed/35037224 |
| The reactome pathway knowledgebase 2022. |
Gillespie M, Jassal B, Stephan R, Milacic M, Rothfels K, Senff-Ribeiro A, Griss J, Sevilla C, Matthews L, Gong C, Deng C, Varusai T, Ragueneau E, Haider Y, May B, Shamovsky V, Weiser J, Brunson T, Sanati N, Beckman L, Shao X, Fabregat A, Sidiropoulos K, Murillo J, Viteri G, Cook J, Shorser S, Bader G, Demir E, Sander C, Haw R, Wu G, Stein L, Hermjakob H, D'Eustachio P |
Nucleic acids research |
34788843 |
Nucleic Acids Res |
2022 Jan 7 |
https://www.ncbi.nlm.nih.gov/pubmed/34788843 |
| Reactome and ORCID-fine-grained credit attribution for community curation. |
Viteri G, Matthews L, Varusai T, Gillespie M, Milacic M, Cook J, Weiser J, Shorser S, Sidiropoulos K, Fabregat A, Haw R, Wu G, Stein L, D'Eustachio P, Hermjakob H |
Database : the journal of biological databases and curation |
31802127 |
Database (Oxford) |
2019 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31802127 |
| Plant Reactome: a knowledgebase and resource for comparative pathway analysis. |
Naithani S, Gupta P, Preece J, D'Eustachio P, Elser JL, Garg P, Dikeman DA, Kiff J, Cook J, Olson A, Wei S, Tello-Ruiz MK, Mundo AF, Munoz-Pomer A, Mohammed S, Cheng T, Bolton E, Papatheodorou I, Stein L, Ware D, Jaiswal P |
Nucleic acids research |
31680153 |
Nucleic Acids Res |
2020 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/31680153 |
| Using the Reactome Database. |
Rothfels K, Milacic M, Matthews L, Haw R, Sevilla C, Gillespie M, Stephan R, Gong C, Ragueneau E, May B, Shamovsky V, Wright A, Weiser J, Beavers D, Conley P, Tiwari K, Jassal B, Griss J, Senff-Ribeiro A, Brunson T, Petryszak R, Hermjakob H, D'Eustachio P, Wu G, Stein L |
Current protocols |
37053306 |
Curr Protoc |
2023 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/37053306 |
| TargetSeeker-MS: A Bayesian Inference Approach for Drug-Target Discovery Using Protein Fractionation Coupled to Mass Spectrometry. |
Lavallée-Adam M, Pelletier A, Diedrich JK, Pinto AFM, Martínez-Bartolomé S, Petrascheck M, Moresco JJ, Yates JR 3rd |
Journal of the American Society for Mass Spectrometry |
40067882 |
J Am Soc Mass Spectrom |
2025 Apr 2 |
https://www.ncbi.nlm.nih.gov/pubmed/40067882 |
| Crowdsourcing in biomedicine: challenges and opportunities. |
Khare R, Good BM, Leaman R, Su AI, Lu Z |
Briefings in bioinformatics |
25888696 |
Brief Bioinform |
2016 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25888696 |
| Spatial and temporal dynamics of the cardiac mitochondrial proteome. |
Lau E, Huang D, Cao Q, Dincer TU, Black CM, Lin AJ, Lee JM, Wang D, Liem DA, Lam MP, Ping P |
Expert review of proteomics |
25752359 |
Expert Rev Proteomics |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/25752359 |
| Jagged1 (JAG1): Structure, expression, and disease associations. |
Grochowski CM, Loomes KM, Spinner NB |
Gene |
26548814 |
Gene |
2016 Jan 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26548814 |
| p38 MAP kinases in the heart. |
Yokota T, Wang Y |
Gene |
26390817 |
Gene |
2016 Jan 10 |
https://www.ncbi.nlm.nih.gov/pubmed/26390817 |
| Temporal neutrophil polarization following myocardial infarction. |
Ma Y, Yabluchanskiy A, Iyer RP, Cannon PL, Flynn ER, Jung M, Henry J, Cates CA, Deleon-Pennell KY, Lindsey ML |
Cardiovascular research |
26825554 |
Cardiovasc Res |
2016 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26825554 |
| TNNT1, TNNT2, and TNNT3: Isoform genes, regulation, and structure-function relationships. |
Wei B, Jin JP |
Gene |
26774798 |
Gene |
2016 May 10 |
https://www.ncbi.nlm.nih.gov/pubmed/26774798 |
| Tissue Inhibitor of Metalloproteinase-1: Actions beyond Matrix Metalloproteinase Inhibition. |
Lindsey ML, Yabluchanskiy A, Ma Y |
Cardiology |
26279068 |
Cardiology |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26279068 |
| From raw data to biological discoveries: a computational analysis pipeline for mass spectrometry-based proteomics. |
Lavallée-Adam M, Park SK, Martínez-Bartolomé S, He L, Yates JR 3rd |
Journal of the American Society for Mass Spectrometry |
26002791 |
J Am Soc Mass Spectrom |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26002791 |
| Connecting the Dots: From Big Data to Healthy Heart. |
Lau E, Watson KE, Ping P |
Circulation |
27481999 |
Circulation |
2016 Aug 2 |
https://www.ncbi.nlm.nih.gov/pubmed/27481999 |
| Apolipoprotein A5 fifteen years anniversary: Lessons from genetic epidemiology. |
Hubacek JA |
Gene |
27496343 |
Gene |
2016 Oct 30 |
https://www.ncbi.nlm.nih.gov/pubmed/27496343 |
| Using the laws of thermodynamics to understand how matrix metalloproteinases coordinate the myocardial response to injury. |
Iyer RP, Jung M, Lindsey ML |
Metalloproteinases in medicine |
27376092 |
Metalloproteinases Med |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/27376092 |
| A large dataset of protein dynamics in the mammalian heart proteome. |
Lau E, Cao Q, Ng DC, Bleakley BJ, Dincer TU, Bot BM, Wang D, Liem DA, Lam MP, Ge J, Ping P |
Scientific data |
26977904 |
Sci Data |
2016 Mar 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26977904 |
| MMP-9 signaling in the left ventricle following myocardial infarction. |
Iyer RP, Jung M, Lindsey ML |
American journal of physiology. Heart and circulatory physiology |
27208160 |
Am J Physiol Heart Circ Physiol |
2016 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27208160 |
| Using PSEA-Quant for Protein Set Enrichment Analysis of Quantitative Mass Spectrometry-Based Proteomics. |
Lavallée-Adam M, Yates JR 3rd |
Current protocols in bioinformatics |
27010334 |
Curr Protoc Bioinformatics |
2016 Mar 24 |
https://www.ncbi.nlm.nih.gov/pubmed/27010334 |
| Gramene Database: Navigating Plant Comparative Genomics Resources. |
Gupta P, Naithani S, Tello-Ruiz MK, Chougule K, D'Eustachio P, Fabregat A, Jiao Y, Keays M, Lee YK, Kumari S, Mulvaney J, Olson A, Preece J, Stein J, Wei S, Weiser J, Huerta L, Petryszak R, Kersey P, Stein LD, Ware D, Jaiswal P |
Current plant biology |
28713666 |
Curr Plant Biol |
2016 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/28713666 |
| Periodontal-induced chronic inflammation triggers macrophage secretion of Ccl12 to inhibit fibroblast-mediated cardiac wound healing. |
DeLeon-Pennell KY, Iyer RP, Ero OK, Cates CA, Flynn ER, Cannon PL, Jung M, Shannon D, Garrett MR, Buchanan W, Hall ME, Ma Y, Lindsey ML |
JCI insight |
28931761 |
JCI Insight |
2017 Sep 21 |
https://www.ncbi.nlm.nih.gov/pubmed/28931761 |
| Metaproteomics of Colonic Microbiota Unveils Discrete Protein Functions among Colitic Mice and Control Groups. |
Moon C, Stupp GS, Su AI, Wolan DW |
Proteomics |
29319931 |
Proteomics |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29319931 |
| Interleukins and their signaling pathways in the Reactome biological pathway database. |
Jupe S, Ray K, Roca CD, Varusai T, Shamovsky V, Stein L, D'Eustachio P, Hermjakob H |
The Journal of allergy and clinical immunology |
29378288 |
J Allergy Clin Immunol |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29378288 |
| Diverse reprogramming codes for neuronal identity. |
Tsunemoto R, Lee S, Szűcs A, Chubukov P, Sokolova I, Blanchard JW, Eade KT, Bruggemann J, Wu C, Torkamani A, Sanna PP, Baldwin KK |
Nature |
29743677 |
Nature |
2018 May |
https://www.ncbi.nlm.nih.gov/pubmed/29743677 |
| Biomedical Informatics on the Cloud: A Treasure Hunt for Advancing Cardiovascular Medicine. |
Ping P, Hermjakob H, Polson JS, Benos PV, Wang W |
Circulation research |
29700073 |
Circ Res |
2018 Apr 27 |
https://www.ncbi.nlm.nih.gov/pubmed/29700073 |
| Reg-ulating macrophage infiltration to alter wound healing following myocardial infarction. |
Lindsey ML |
Cardiovascular research |
29912288 |
Cardiovasc Res |
2018 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29912288 |
| LXR/RXR signaling and neutrophil phenotype following myocardial infarction classify sex differences in remodeling. |
DeLeon-Pennell KY, Mouton AJ, Ero OK, Ma Y, Padmanabhan Iyer R, Flynn ER, Espinoza I, Musani SK, Vasan RS, Hall ME, Fox ER, Lindsey ML |
Basic research in cardiology |
30132266 |
Basic Res Cardiol |
2018 Aug 21 |
https://www.ncbi.nlm.nih.gov/pubmed/30132266 |
| Approximating Isotope Distributions of Biomolecule Fragments. |
Goldfarb D, Lafferty MJ, Herring LE, Wang W, Major MB |
ACS omega |
30288463 |
ACS Omega |
2018 Sep 30 |
https://www.ncbi.nlm.nih.gov/pubmed/30288463 |
| Extracellular matrix in cardiovascular pathophysiology. |
Bloksgaard M, Lindsey M, Martinez-Lemus LA |
American journal of physiology. Heart and circulatory physiology |
30239231 |
Am J Physiol Heart Circ Physiol |
2018 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30239231 |
| Chemoproteomic profiling and discovery of protein electrophiles in human cells. |
Matthews ML, He L, Horning BD, Olson EJ, Correia BE, Yates JR 3rd, Dawson PE, Cravatt BF |
Nature chemistry |
28221344 |
Nat Chem |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28221344 |
| Reactome pathway analysis: a high-performance in-memory approach. |
Fabregat A, Sidiropoulos K, Viteri G, Forner O, Marin-Garcia P, Arnau V, D'Eustachio P, Stein L, Hermjakob H |
BMC bioinformatics |
28249561 |
BMC Bioinformatics |
2017 Mar 2 |
https://www.ncbi.nlm.nih.gov/pubmed/28249561 |
| Influence of donor age on induced pluripotent stem cells. |
Lo Sardo V, Ferguson W, Erikson GA, Topol EJ, Baldwin KK, Torkamani A |
Nature biotechnology |
27941802 |
Nat Biotechnol |
2017 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/27941802 |
| The impact of aging on cardiac extracellular matrix. |
Meschiari CA, Ero OK, Pan H, Finkel T, Lindsey ML |
GeroScience |
28299638 |
Geroscience |
2017 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/28299638 |
| Re-analysis of whole-exome sequencing data uncovers novel diagnostic variants and improves molecular diagnostic yields for sudden death and idiopathic diseases. |
Salfati EL, Spencer EG, Topol SE, Muse ED, Rueda M, Lucas JR, Wagner GN, Campman S, Topol EJ, Torkamani A |
Genome medicine |
31847883 |
Genome Med |
2019 Dec 17 |
https://www.ncbi.nlm.nih.gov/pubmed/31847883 |
| Risk factors for development of aminoglycoside resistance among gram-negative rods. |
Richter SE, Miller L, Needleman J, Uslan DZ, Bell D, Watson K, Humphries R, McKinnell JA |
American journal of health-system pharmacy : AJHP : official journal of the American Society of Health-System Pharmacists |
31665763 |
Am J Health Syst Pharm |
2019 Oct 30 |
https://www.ncbi.nlm.nih.gov/pubmed/31665763 |
| Multifaceted protein-protein interaction prediction based on Siamese residual RCNN. |
Chen M, Ju CJ, Zhou G, Chen X, Zhang T, Chang KW, Zaniolo C, Wang W |
Bioinformatics (Oxford, England) |
31510705 |
Bioinformatics |
2019 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/31510705 |
| Quantifying the impact of public omics data. |
Perez-Riverol Y, Zorin A, Dass G, Vu MT, Xu P, Glont M, Vizcaíno JA, Jarnuczak AF, Petryszak R, Ping P, Hermjakob H |
Nature communications |
31383865 |
Nat Commun |
2019 Aug 5 |
https://www.ncbi.nlm.nih.gov/pubmed/31383865 |
| Wikidata as a knowledge graph for the life sciences. |
Waagmeester A, Stupp G, Burgstaller-Muehlbacher S, Good BM, Griffith M, Griffith OL, Hanspers K, Hermjakob H, Hudson TS, Hybiske K, Keating SM, Manske M, Mayers M, Mietchen D, Mitraka E, Pico AR, Putman T, Riutta A, Queralt-Rosinach N, Schriml LM, Shafee T, Slenter D, Stephan R, Thornton K, Tsueng G, Tu R, Ul-Hasan S, Willighagen E, Wu C, Su AI |
eLife |
32180547 |
Elife |
2020 Mar 17 |
https://www.ncbi.nlm.nih.gov/pubmed/32180547 |
| Genotype imputation and variability in polygenic risk score estimation. |
Chen SF, Dias R, Evans D, Salfati EL, Liu S, Wineinger NE, Torkamani A |
Genome medicine |
33225976 |
Genome Med |
2020 Nov 23 |
https://www.ncbi.nlm.nih.gov/pubmed/33225976 |
| Reactome diagram viewer: data structures and strategies to boost performance. |
Fabregat A, Sidiropoulos K, Viteri G, Marin-Garcia P, Ping P, Stein L, D'Eustachio P, Hermjakob H |
Bioinformatics (Oxford, England) |
29186351 |
Bioinformatics |
2018 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29186351 |
| Understanding cardiac extracellular matrix remodeling to develop biomarkers of myocardial infarction outcomes. |
Nielsen SH, Mouton AJ, DeLeon-Pennell KY, Genovese F, Karsdal M, Lindsey ML |
Matrix biology : journal of the International Society for Matrix Biology |
29247693 |
Matrix Biol |
2019 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/29247693 |
| Cardiac Fibroblast Activation Post-Myocardial Infarction: Current Knowledge Gaps. |
Ma Y, Iyer RP, Jung M, Czubryt MP, Lindsey ML |
Trends in pharmacological sciences |
28365093 |
Trends Pharmacol Sci |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/28365093 |
| Matrix Metalloproteinases in Myocardial Infarction and Heart Failure. |
DeLeon-Pennell KY, Meschiari CA, Jung M, Lindsey ML |
Progress in molecular biology and translational science |
28413032 |
Prog Mol Biol Transl Sci |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28413032 |
| A crowdsourcing workflow for extracting chemical-induced disease relations from free text. |
Li TS, Bravo À, Furlong LI, Good BM, Su AI |
Database : the journal of biological databases and curation |
27087308 |
Database (Oxford) |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27087308 |
| Cardiovascular proteomics in the era of big data: experimental and computational advances. |
Lam MP, Lau E, Ng DC, Wang D, Ping P |
Clinical proteomics |
27980500 |
Clin Proteomics |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27980500 |
| Quantitative Metaproteomics and Activity-Based Probe Enrichment Reveals Significant Alterations in Protein Expression from a Mouse Model of Inflammatory Bowel Disease. |
Mayers MD, Moon C, Stupp GS, Su AI, Wolan DW |
Journal of proteome research |
28052195 |
J Proteome Res |
2017 Feb 3 |
https://www.ncbi.nlm.nih.gov/pubmed/28052195 |
| Overview of the interactive task in BioCreative V. |
Wang Q, S Abdul S, Almeida L, Ananiadou S, Balderas-Martínez YI, Batista-Navarro R, Campos D, Chilton L, Chou HJ, Contreras G, Cooper L, Dai HJ, Ferrell B, Fluck J, Gama-Castro S, George N, Gkoutos G, Irin AK, Jensen LJ, Jimenez S, Jue TR, Keseler I, Madan S, Matos S, McQuilton P, Milacic M, Mort M, Natarajan J, Pafilis E, Pereira E, Rao S, Rinaldi F, Rothfels K, Salgado D, Silva RM, Singh O, Stefancsik R, Su CH, Subramani S, Tadepally HD, Tsaprouni L, Vasilevsky N, Wang X, Chatr-Aryamontri A, Laulederkind SJ, Matis-Mitchell S, McEntyre J, Orchard S, Pundir S, Rodriguez-Esteban R, Van Auken K, Lu Z, Schaeffer M, Wu CH, Hirschman L, Arighi CN |
Database : the journal of biological databases and curation |
27589961 |
Database (Oxford) |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27589961 |
| Risk Factors for Development of Carbapenem Resistance Among Gram-Negative Rods. |
Richter SE, Miller L, Needleman J, Uslan DZ, Bell D, Watson K, Humphries R, McKinnell JA |
Open forum infectious diseases |
30863785 |
Open Forum Infect Dis |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30863785 |
| Citizen Science for Mining the Biomedical Literature. |
Tsueng G, Nanis SM, Fouquier J, Good BM, Su AI |
Citizen science : theory and practice |
30416754 |
Citiz Sci |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/30416754 |
| Unveiling the Role of the Most Impactful Cardiovascular Risk Locus through Haplotype Editing. |
Lo Sardo V, Chubukov P, Ferguson W, Kumar A, Teng EL, Duran M, Zhang L, Cost G, Engler AJ, Urnov F, Topol EJ, Torkamani A, Baldwin KK |
Cell |
30528432 |
Cell |
2018 Dec 13 |
https://www.ncbi.nlm.nih.gov/pubmed/30528432 |
| Identifying the molecular and cellular signature of cardiac dilation following myocardial infarction. |
Lindsey ML, Ma Y, Flynn ER, Winniford MD, Hall ME, DeLeon-Pennell KY |
Biochimica et biophysica acta. Molecular basis of disease |
31109452 |
Biochim Biophys Acta Mol Basis Dis |
2019 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31109452 |
| ReactomeGSA: new features to simplify public data reuse. |
Grentner A, Ragueneau E, Gong C, Prinz A, Gansberger S, Oyarzun I, Hermjakob H, Griss J |
Bioinformatics (Oxford, England) |
38806182 |
Bioinformatics |
2024 Jun 3 |
https://www.ncbi.nlm.nih.gov/pubmed/38806182 |
| The Reactome Pathway Knowledgebase 2024. |
Milacic M, Beavers D, Conley P, Gong C, Gillespie M, Griss J, Haw R, Jassal B, Matthews L, May B, Petryszak R, Ragueneau E, Rothfels K, Sevilla C, Shamovsky V, Stephan R, Tiwari K, Varusai T, Weiser J, Wright A, Wu G, Stein L, Hermjakob H, D'Eustachio P |
Nucleic acids research |
37941124 |
Nucleic Acids Res |
2024 Jan 5 |
https://www.ncbi.nlm.nih.gov/pubmed/37941124 |
| ProLuCID: An improved SEQUEST-like algorithm with enhanced sensitivity and specificity. |
Xu T, Park SK, Venable JD, Wohlschlegel JA, Diedrich JK, Cociorva D, Lu B, Liao L, Hewel J, Han X, Wong CCL, Fonslow B, Delahunty C, Gao Y, Shah H, Yates JR 3rd |
Journal of proteomics |
26171723 |
J Proteomics |
2015 Nov 3 |
https://www.ncbi.nlm.nih.gov/pubmed/26171723 |
| Functions of myosin light chain-2 (MYL2) in cardiac muscle and disease. |
Sheikh F, Lyon RC, Chen J |
Gene |
26074085 |
Gene |
2015 Sep 10 |
https://www.ncbi.nlm.nih.gov/pubmed/26074085 |
| Human paraoxonase-1 (PON1): Gene structure and expression, promiscuous activities and multiple physiological roles. |
Mackness M, Mackness B |
Gene |
25965560 |
Gene |
2015 Aug 1 |
https://www.ncbi.nlm.nih.gov/pubmed/25965560 |
| Matrix metalloproteinases as input and output signals for post-myocardial infarction remodeling. |
Lindsey ML, Iyer RP, Jung M, DeLeon-Pennell KY, Ma Y |
Journal of molecular and cellular cardiology |
26721597 |
J Mol Cell Cardiol |
2016 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/26721597 |
| Physiological and Molecular Alterations Promoted by Schizotetranychus oryzae Mite Infestation in Rice Leaves. |
Buffon G, Blasi ÉA, Adamski JM, Ferla NJ, Berger M, Santi L, Lavallée-Adam M, Yates JR 3rd, Beys-da-Silva WO, Sperotto RA |
Journal of proteome research |
26667653 |
J Proteome Res |
2016 Feb 5 |
https://www.ncbi.nlm.nih.gov/pubmed/26667653 |
| Endothelial nitric oxide synthase: From biochemistry and gene structure to clinical implications of NOS3 polymorphisms. |
Oliveira-Paula GH, Lacchini R, Tanus-Santos JE |
Gene |
26428312 |
Gene |
2016 Jan 10 |
https://www.ncbi.nlm.nih.gov/pubmed/26428312 |
| HFE gene: Structure, function, mutations, and associated iron abnormalities. |
Barton JC, Edwards CQ, Acton RT |
Gene |
26456104 |
Gene |
2015 Dec 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26456104 |
| The crossroads of inflammation, fibrosis, and arrhythmia following myocardial infarction. |
Francis Stuart SD, De Jesus NM, Lindsey ML, Ripplinger CM |
Journal of molecular and cellular cardiology |
26739214 |
J Mol Cell Cardiol |
2016 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/26739214 |
| Whole-Genome Sequencing of a Healthy Aging Cohort. |
Erikson GA, Bodian DL, Rueda M, Molparia B, Scott ER, Scott-Van Zeeland AA, Topol SE, Wineinger NE, Niederhuber JE, Topol EJ, Torkamani A |
Cell |
27114037 |
Cell |
2016 May 5 |
https://www.ncbi.nlm.nih.gov/pubmed/27114037 |
| Calponin isoforms CNN1, CNN2 and CNN3: Regulators for actin cytoskeleton functions in smooth muscle and non-muscle cells. |
Liu R, Jin JP |
Gene |
26970176 |
Gene |
2016 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26970176 |
| Wikidata as a semantic framework for the Gene Wiki initiative. |
Burgstaller-Muehlbacher S, Waagmeester A, Mitraka E, Turner J, Putman T, Leong J, Naik C, Pavlidis P, Schriml L, Good BM, Su AI |
Database : the journal of biological databases and curation |
26989148 |
Database (Oxford) |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/26989148 |
| A comprehensive and scalable database search system for metaproteomics. |
Chatterjee S, Stupp GS, Park SK, Ducom JC, Yates JR 3rd, Su AI, Wolan DW |
BMC genomics |
27528457 |
BMC Genomics |
2016 Aug 16 |
https://www.ncbi.nlm.nih.gov/pubmed/27528457 |
| Structure and functional roles of Epac2 (Rapgef4). |
Sugawara K, Shibasaki T, Takahashi H, Seino S |
Gene |
26390815 |
Gene |
2016 Jan 10 |
https://www.ncbi.nlm.nih.gov/pubmed/26390815 |
| MET network in PubMed: a text-mined network visualization and curation system. |
Dai HJ, Su CH, Lai PT, Huang MS, Jonnagaddala J, Rose Jue T, Rao S, Chou HJ, Milacic M, Singh O, Syed-Abdul S, Hsu WL |
Database : the journal of biological databases and curation |
27242035 |
Database (Oxford) |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27242035 |
| Molecular Autopsy for Sudden Unexpected Death. |
Torkamani A, Muse ED, Spencer EG, Rueda M, Wagner GN, Lucas JR, Topol EJ |
JAMA |
27727376 |
JAMA |
2016 Oct 11 |
https://www.ncbi.nlm.nih.gov/pubmed/27727376 |
| Transgenic overexpression of macrophage matrix metalloproteinase-9 exacerbates age-related cardiac hypertrophy, vessel rarefaction, inflammation, and fibrosis. |
Toba H, Cannon PL, Yabluchanskiy A, Iyer RP, D'Armiento J, Lindsey ML |
American journal of physiology. Heart and circulatory physiology |
28011588 |
Am J Physiol Heart Circ Physiol |
2017 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28011588 |
| High-Definition Medicine. |
Torkamani A, Andersen KG, Steinhubl SR, Topol EJ |
Cell |
28841416 |
Cell |
2017 Aug 24 |
https://www.ncbi.nlm.nih.gov/pubmed/28841416 |
| Risk Factors for Colistin Resistance among Gram-Negative Rods and Klebsiella pneumoniae Isolates. |
Richter SE, Miller L, Uslan DZ, Bell D, Watson K, Humphries R, McKinnell JA |
Journal of clinical microbiology |
29976595 |
J Clin Microbiol |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/29976595 |
| Adding Reg3β to the acute coronary syndrome prognostic marker list. |
Lindsey ML, Mouton AJ, Ma Y |
International journal of cardiology |
29544938 |
Int J Cardiol |
2018 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29544938 |
| PACOM: A Versatile Tool for Integrating, Filtering, Visualizing, and Comparing Multiple Large Mass Spectrometry Proteomics Data Sets. |
Martínez-Bartolomé S, Medina-Aunon JA, López-García MÁ, González-Tejedo C, Prieto G, Navajas R, Salazar-Donate E, Fernández-Costa C, Yates JR 3rd, Albar JP |
Journal of proteome research |
29558135 |
J Proteome Res |
2018 Apr 6 |
https://www.ncbi.nlm.nih.gov/pubmed/29558135 |
| Assigning matrix metalloproteinase roles in ischaemic cardiac remodelling. |
Lindsey ML |
Nature reviews. Cardiology |
29752454 |
Nat Rev Cardiol |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29752454 |
| IL-10 improves cardiac remodeling after myocardial infarction by stimulating M2 macrophage polarization and fibroblast activation. |
Jung M, Ma Y, Iyer RP, DeLeon-Pennell KY, Yabluchanskiy A, Garrett MR, Lindsey ML |
Basic research in cardiology |
28439731 |
Basic Res Cardiol |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/28439731 |
| Triflic Acid Treatment Enables LC-MS/MS Analysis of Insoluble Bacterial Biomass. |
Wang AY, Thuy-Boun PS, Stupp GS, Su AI, Wolan DW |
Journal of proteome research |
30019906 |
J Proteome Res |
2018 Sep 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30019906 |
| Integrated Dissection of Cysteine Oxidative Post-translational Modification Proteome During Cardiac Hypertrophy. |
Wang J, Choi H, Chung NC, Cao Q, Ng DCM, Mirza B, Scruggs SB, Wang D, Garlid AO, Ping P |
Journal of proteome research |
30141336 |
J Proteome Res |
2018 Dec 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30141336 |
| ChatGPT usage in the Reactome curation process. |
Tiwari K, Matthews L, May B, Shamovsky V, Orlic-Milacic M, Rothfels K, Ragueneau E, Gong C, Stephan R, Li N, Wu G, Stein L, D'Eustachio P, Hermjakob H |
bioRxiv : the preprint server for biology |
37986970 |
bioRxiv |
2023 Nov 8 |
https://www.ncbi.nlm.nih.gov/pubmed/37986970 |
| Heterogeneous network embedding enabling accurate disease association predictions. |
Xiong Y, Guo M, Ruan L, Kong X, Tang C, Zhu Y, Wang W |
BMC medical genomics |
31865913 |
BMC Med Genomics |
2019 Dec 23 |
https://www.ncbi.nlm.nih.gov/pubmed/31865913 |
| TAZ encodes tafazzin, a transacylase essential for cardiolipin formation and central to the etiology of Barth syndrome. |
Garlid AO, Schaffer CT, Kim J, Bhatt H, Guevara-Gonzalez V, Ping P |
Gene |
31647997 |
Gene |
2020 Feb 5 |
https://www.ncbi.nlm.nih.gov/pubmed/31647997 |
| Network Analysis Reveals a Distinct Axis of Macrophage Activation in Response to Conflicting Inflammatory Cues. |
Liu X, Zhang J, Zeigler AC, Nelson AR, Lindsey ML, Saucerman JJ |
Journal of immunology (Baltimore, Md. : 1950) |
33408259 |
J Immunol |
2021 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/33408259 |
| Directed remodeling of the mouse gut microbiome inhibits the development of atherosclerosis. |
Chen PB, Black AS, Sobel AL, Zhao Y, Mukherjee P, Molparia B, Moore NE, Aleman Muench GR, Wu J, Chen W, Pinto AFM, Maryanoff BE, Saghatelian A, Soroosh P, Torkamani A, Leman LJ, Ghadiri MR |
Nature biotechnology |
32541956 |
Nat Biotechnol |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/32541956 |
| Glycoproteomic Profiling Provides Candidate Myocardial Infarction Predictors of Later Progression to Heart Failure. |
Deleon-Pennell KY, Ero OK, Ma Y, Padmanabhan Iyer R, Flynn ER, Espinoza I, Musani SK, Vasan RS, Hall ME, Fox ER, Lindsey ML |
ACS omega |
30729226 |
ACS Omega |
2019 Jan 31 |
https://www.ncbi.nlm.nih.gov/pubmed/30729226 |
| Mutations of the mitochondrial carrier translocase channel subunit TIM22 cause early-onset mitochondrial myopathy. |
Pacheu-Grau D, Callegari S, Emperador S, Thompson K, Aich A, Topol SE, Spencer EG, McFarland R, Ruiz-Pesini E, Torkamani A, Taylor RW, Montoya J, Rehling P |
Human molecular genetics |
30452684 |
Hum Mol Genet |
2018 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30452684 |
| Fibroblast polarization over the myocardial infarction time continuum shifts roles from inflammation to angiogenesis. |
Mouton AJ, Ma Y, Rivera Gonzalez OJ, Daseke MJ 2nd, Flynn ER, Freeman TC, Garrett MR, DeLeon-Pennell KY, Lindsey ML |
Basic research in cardiology |
30635789 |
Basic Res Cardiol |
2019 Jan 11 |
https://www.ncbi.nlm.nih.gov/pubmed/30635789 |
| High-performance web services for querying gene and variant annotation. |
Xin J, Mark A, Afrasiabi C, Tsueng G, Juchler M, Gopal N, Stupp GS, Putman TE, Ainscough BJ, Griffith OL, Torkamani A, Whetzel PL, Mungall CJ, Mooney SD, Su AI, Wu C |
Genome biology |
27154141 |
Genome Biol |
2016 May 6 |
https://www.ncbi.nlm.nih.gov/pubmed/27154141 |
| Centralizing content and distributing labor: a community model for curating the very long tail of microbial genomes. |
Putman TE, Burgstaller-Muehlbacher S, Waagmeester A, Wu C, Su AI, Good BM |
Database : the journal of biological databases and curation |
27022157 |
Database (Oxford) |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27022157 |
| Content Is King: Databases Preserve the Collective Information of Science. |
Yates JR 3rd |
Journal of biomolecular techniques : JBT |
29618955 |
J Biomol Tech |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29618955 |
| Quantitative temporal analysis of protein dynamics in cardiac remodeling. |
McClatchy DB, Ma Y, Liem DA, Ng DCM, Ping P, Yates JR 3rd |
Journal of molecular and cellular cardiology |
30009778 |
J Mol Cell Cardiol |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30009778 |
| Extracellular matrix roles in cardiorenal fibrosis: Potential therapeutic targets for CVD and CKD in the elderly. |
Toba H, Lindsey ML |
Pharmacology & therapeutics |
30149103 |
Pharmacol Ther |
2019 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/30149103 |
| Matrix metalloproteinase-12 as an endogenous resolution promoting factor following myocardial infarction. |
Mouton AJ, Rivera Gonzalez OJ, Kaminski AR, Moore ET, Lindsey ML |
Pharmacological research |
30394317 |
Pharmacol Res |
2018 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30394317 |
| Harnessing the heart of big data. |
Scruggs SB, Watson K, Su AI, Hermjakob H, Yates JR 3rd, Lindsey ML, Ping P |
Circulation research |
25814682 |
Circ Res |
2015 Mar 27 |
https://www.ncbi.nlm.nih.gov/pubmed/25814682 |
| Muscle LIM Protein: Master regulator of cardiac and skeletal muscle functions. |
Vafiadaki E, Arvanitis DA, Sanoudou D |
Gene |
25936993 |
Gene |
2015 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/25936993 |
| The KCNE2 K⁺ channel regulatory subunit: Ubiquitous influence, complex pathobiology. |
Abbott GW |
Gene |
26123744 |
Gene |
2015 Sep 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26123744 |
| The FHL2 regulation in the transcriptional circuitry of human cancers. |
Cao CY, Mok SW, Cheng VW, Tsui SK |
Gene |
26211626 |
Gene |
2015 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26211626 |
| The circular relationship between matrix metalloproteinase-9 and inflammation following myocardial infarction. |
Deleon-Pennell KY, Altara R, Yabluchanskiy A, Modesti A, Lindsey ML |
IUBMB life |
26269290 |
IUBMB Life |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26269290 |
| Individualized Knowledge Graph: A Viable Informatics Path to Precision Medicine. |
Ping P, Watson K, Han J, Bui A |
Circulation research |
28360346 |
Circ Res |
2017 Mar 31 |
https://www.ncbi.nlm.nih.gov/pubmed/28360346 |
| Applying citizen science to gene, drug and disease relationship extraction from biomedical abstracts. |
Tsueng G, Nanis M, Fouquier JT, Mayers M, Good BM, Su AI |
Bioinformatics (Oxford, England) |
31504205 |
Bioinformatics |
2020 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/31504205 |
| Mechanical activation of noncoding-RNA-mediated regulation of disease-associated phenotypes in human cardiomyocytes. |
Kumar A, Thomas SK, Wong KC, Lo Sardo V, Cheah DS, Hou YH, Placone JK, Tenerelli KP, Ferguson WC, Torkamani A, Topol EJ, Baldwin KK, Engler AJ |
Nature biomedical engineering |
30911429 |
Nat Biomed Eng |
2019 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/30911429 |
| Aligning Needs: Integrating Citizen Science Efforts into Schools Through Service Requirements. |
Tsueng G, Kumar A, Nanis SM, Su AI |
Human computation (Fairfax, Va.) |
31363486 |
Hum Comput (Fairfax) |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31363486 |
| PathwayMatcher: proteoform-centric network construction enables fine-granularity multiomics pathway mapping. |
Sánchez LFH, Burger B, Horro C, Fabregat A, Johansson S, Njølstad PR, Barsnes H, Hermjakob H, Vaudel M |
GigaScience |
31363752 |
Gigascience |
2019 Aug 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31363752 |
| Unsupervised classification of multi-omics data during cardiac remodeling using deep learning. |
Chung NC, Mirza B, Choi H, Wang J, Wang D, Ping P, Wang W |
Methods (San Diego, Calif.) |
30853547 |
Methods |
2019 Aug 15 |
https://www.ncbi.nlm.nih.gov/pubmed/30853547 |
| Proteomics INTegrator (PINT): An Online Tool To Store, Query, and Visualize Large Proteomics Experiment Results. |
Martínez-Bartolomé S, Bamberger TC, Lavallée-Adam M, McClatchy DB, Yates JR 3rd |
Journal of proteome research |
31260318 |
J Proteome Res |
2019 Aug 2 |
https://www.ncbi.nlm.nih.gov/pubmed/31260318 |
| Machine Learning and Integrative Analysis of Biomedical Big Data. |
Mirza B, Wang W, Wang J, Choi H, Chung NC, Ping P |
Genes |
30696086 |
Genes (Basel) |
2019 Jan 28 |
https://www.ncbi.nlm.nih.gov/pubmed/30696086 |
| Cardiac macrophage biology in the steady-state heart, the aging heart, and following myocardial infarction. |
Ma Y, Mouton AJ, Lindsey ML |
Translational research : the journal of laboratory and clinical medicine |
29106912 |
Transl Res |
2018 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/29106912 |
| Data-analysis strategies for image-based cell profiling. |
Caicedo JC, Cooper S, Heigwer F, Warchal S, Qiu P, Molnar C, Vasilevich AS, Barry JD, Bansal HS, Kraus O, Wawer M, Paavolainen L, Herrmann MD, Rohban M, Hung J, Hennig H, Concannon J, Smith I, Clemons PA, Singh S, Rees P, Horvath P, Linington RG, Carpenter AE |
Nature methods |
28858338 |
Nat Methods |
2017 Aug 31 |
https://www.ncbi.nlm.nih.gov/pubmed/28858338 |
| Integrated omics dissection of proteome dynamics during cardiac remodeling. |
Lau E, Cao Q, Lam MPY, Wang J, Ng DCM, Bleakley BJ, Lee JM, Liem DA, Wang D, Hermjakob H, Ping P |
Nature communications |
29317621 |
Nat Commun |
2018 Jan 9 |
https://www.ncbi.nlm.nih.gov/pubmed/29317621 |
| SG-ADVISER mtDNA: a web server for mitochondrial DNA annotation with data from 200 samples of a healthy aging cohort. |
Rueda M, Torkamani A |
BMC bioinformatics |
28821228 |
BMC Bioinformatics |
2017 Aug 18 |
https://www.ncbi.nlm.nih.gov/pubmed/28821228 |
| Knowledge gaps to understanding cardiac macrophage polarization following myocardial infarction. |
Lindsey ML, Saucerman JJ, DeLeon-Pennell KY |
Biochimica et biophysica acta |
27240543 |
Biochim Biophys Acta |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27240543 |
| PRKCE gene encoding protein kinase C-epsilon-Dual roles at sarcomeres and mitochondria in cardiomyocytes. |
Scruggs SB, Wang D, Ping P |
Gene |
27312950 |
Gene |
2016 Sep 15 |
https://www.ncbi.nlm.nih.gov/pubmed/27312950 |
| Defining the sham environment for post-myocardial infarction studies in mice. |
Iyer RP, de Castro Brás LE, Cannon PL, Ma Y, DeLeon-Pennell KY, Jung M, Flynn ER, Henry JB, Bratton DR, White JA, Fulton LK, Grady AW, Lindsey ML |
American journal of physiology. Heart and circulatory physiology |
27521418 |
Am J Physiol Heart Circ Physiol |
2016 Sep 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27521418 |
| May the fibrosis be with you: Is discoidin domain receptor 2 the receptor we have been looking for? |
DeLeon-Pennell KY |
Journal of molecular and cellular cardiology |
26772530 |
J Mol Cell Cardiol |
2016 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/26772530 |
| The Reactome pathway Knowledgebase. |
Fabregat A, Sidiropoulos K, Garapati P, Gillespie M, Hausmann K, Haw R, Jassal B, Jupe S, Korninger F, McKay S, Matthews L, May B, Milacic M, Rothfels K, Shamovsky V, Webber M, Weiser J, Williams M, Wu G, Stein L, Hermjakob H, D'Eustachio P |
Nucleic acids research |
26656494 |
Nucleic Acids Res |
2016 Jan 4 |
https://www.ncbi.nlm.nih.gov/pubmed/26656494 |
| Protein kinase A catalytic subunit isoform PRKACA; History, function and physiology. |
Turnham RE, Scott JD |
Gene |
26687711 |
Gene |
2016 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26687711 |
| Atrial natriuretic peptide in cardiovascular biology and disease (NPPA). |
Song W, Wang H, Wu Q |
Gene |
26074089 |
Gene |
2015 Sep 10 |
https://www.ncbi.nlm.nih.gov/pubmed/26074089 |
| KCNE1 and KCNE3: The yin and yang of voltage-gated K(+) channel regulation. |
Abbott GW |
Gene |
26410412 |
Gene |
2016 Jan 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26410412 |
| Cardiac myosin-binding protein C (MYBPC3) in cardiac pathophysiology. |
Carrier L, Mearini G, Stathopoulou K, Cuello F |
Gene |
26358504 |
Gene |
2015 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26358504 |
| Proteomics Research in Cardiovascular Medicine and Biomarker Discovery. |
Lam MP, Ping P, Murphy E |
Journal of the American College of Cardiology |
28007144 |
J Am Coll Cardiol |
2016 Dec 27 |
https://www.ncbi.nlm.nih.gov/pubmed/28007144 |
| Mutation effect estimation on protein-protein interactions using deep contextualized representation learning. |
Zhou G, Chen M, Ju CJT, Wang Z, Jiang JY, Wang W |
NAR genomics and bioinformatics |
32166223 |
NAR Genom Bioinform |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/32166223 |
| Pathway-based, reaction-specific annotation of disease variants for elucidation of molecular phenotypes. |
Orlic-Milacic M, Rothfels K, Matthews L, Wright A, Jassal B, Shamovsky V, Trinh Q, Gillespie ME, Sevilla C, Tiwari K, Ragueneau E, Gong C, Stephan R, May B, Haw R, Weiser J, Beavers D, Conley P, Hermjakob H, Stein LD, D'Eustachio P, Wu G |
Database : the journal of biological databases and curation |
38713862 |
Database (Oxford) |
2024 May 7 |
https://www.ncbi.nlm.nih.gov/pubmed/38713862 |
| Decoding the transcriptome of calcified atherosclerotic plaque at single-cell resolution. |
Alsaigh T, Evans D, Frankel D, Torkamani A |
Communications biology |
36224302 |
Commun Biol |
2022 Oct 12 |
https://www.ncbi.nlm.nih.gov/pubmed/36224302 |
| Connectome imaging for mapping human brain pathways. |
Shi Y, Toga AW |
Molecular psychiatry |
28461700 |
Mol Psychiatry |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/28461700 |
| The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition. |
Deutsch EW, Csordas A, Sun Z, Jarnuczak A, Perez-Riverol Y, Ternent T, Campbell DS, Bernal-Llinares M, Okuda S, Kawano S, Moritz RL, Carver JJ, Wang M, Ishihama Y, Bandeira N, Hermjakob H, Vizcaíno JA |
Nucleic acids research |
27924013 |
Nucleic Acids Res |
2017 Jan 4 |
https://www.ncbi.nlm.nih.gov/pubmed/27924013 |
| The mzIdentML Data Standard Version 1.2, Supporting Advances in Proteome Informatics. |
Vizcaíno JA, Mayer G, Perkins S, Barsnes H, Vaudel M, Perez-Riverol Y, Ternent T, Uszkoreit J, Eisenacher M, Fischer L, Rappsilber J, Netz E, Walzer M, Kohlbacher O, Leitner A, Chalkley RJ, Ghali F, Martínez-Bartolomé S, Deutsch EW, Jones AR |
Molecular & cellular proteomics : MCP |
28515314 |
Mol Cell Proteomics |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28515314 |
| Trans-Proteomic Pipeline, a standardized data processing pipeline for large-scale reproducible proteomics informatics. |
Deutsch EW, Mendoza L, Shteynberg D, Slagel J, Sun Z, Moritz RL |
Proteomics. Clinical applications |
25631240 |
Proteomics Clin Appl |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/25631240 |
| Sharing data in the global alzheimer's association interactive network. |
Neu SC, Crawford KL, Toga AW |
NeuroImage |
26049147 |
Neuroimage |
2016 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26049147 |
| Metrics for the Human Proteome Project 2015: Progress on the Human Proteome and Guidelines for High-Confidence Protein Identification. |
Omenn GS, Lane L, Lundberg EK, Beavis RC, Nesvizhskii AI, Deutsch EW |
Journal of proteome research |
26155816 |
J Proteome Res |
2015 Sep 4 |
https://www.ncbi.nlm.nih.gov/pubmed/26155816 |
| The Global Alzheimer's Association Interactive Network. |
Toga AW, Neu SC, Bhatt P, Crawford KL, Ashish N |
Alzheimer's & dementia : the journal of the Alzheimer's Association |
26318022 |
Alzheimers Dement |
2016 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/26318022 |
| Structural Brain Changes in Early-Onset Alzheimer's Disease Subjects Using the LONI Pipeline Environment. |
Moon SW, Dinov ID, Hobel S, Zamanyan A, Choi YC, Shi R, Thompson PM, Toga AW, Alzheimer's Disease Neuroimaging Initiative |
Journal of neuroimaging : official journal of the American Society of Neuroimaging |
25940587 |
J Neuroimaging |
2015 Sep-Oct |
https://www.ncbi.nlm.nih.gov/pubmed/25940587 |
| MRI-based brain atrophy rates in ADNI phase 2: acceleration and enrichment considerations for clinical trials. |
Hua X, Ching CRK, Mezher A, Gutman BA, Hibar DP, Bhatt P, Leow AD, Jack CR Jr, Bernstein MA, Weiner MW, Thompson PM, Alzheimer's Disease Neuroimaging Initiative |
Neurobiology of aging |
26545631 |
Neurobiol Aging |
2016 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/26545631 |
| Sharing the wealth: Neuroimaging data repositories. |
Eickhoff S, Nichols TE, Van Horn JD, Turner JA |
NeuroImage |
26574120 |
Neuroimage |
2016 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26574120 |
| Mapping Brain Anatomical Connectivity Using Diffusion Magnetic Resonance Imaging: Structural connectivity of the human brain. |
Li J, Shi Y, Toga AW |
IEEE signal processing magazine |
27212872 |
IEEE Signal Process Mag |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/27212872 |
| Topological false discovery rates for brain mapping based on signal height. |
Li J, Gahm JK, Shi Y, Toga AW |
NeuroImage |
27838286 |
Neuroimage |
2018 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/27838286 |
| Multiscale Analysis of Independent Alzheimer's Cohorts Finds Disruption of Molecular, Genetic, and Clinical Networks by Human Herpesvirus. |
Readhead B, Haure-Mirande JV, Funk CC, Richards MA, Shannon P, Haroutunian V, Sano M, Liang WS, Beckmann ND, Price ND, Reiman EM, Schadt EE, Ehrlich ME, Gandy S, Dudley JT |
Neuron |
29937276 |
Neuron |
2018 Jul 11 |
https://www.ncbi.nlm.nih.gov/pubmed/29937276 |
| SOCRAT Platform Design: A Web Architecture for Interactive Visual Analytics Applications. |
Kalinin AA, Palanimalai S, Dinov ID |
Proceedings of the 2nd Workshop on Human-In-the-Loop Data Analytics. Workshop on Human-In-the-Loop Data Analytics (2nd : 2017 : Chicago, Ill.) |
29630069 |
Proc 2nd Workshop Hum Loop Data Anal (2017) |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29630069 |
| Classifying Alzheimer's disease with brain imaging and genetic data using a neural network framework. |
Ning K, Chen B, Sun F, Hobel Z, Zhao L, Matloff W, Alzheimer's Disease Neuroimaging Initiative, Toga AW |
Neurobiology of aging |
29784544 |
Neurobiol Aging |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29784544 |
| Motor neuron loss and neuroinflammation in a model of α-synuclein-induced neurodegeneration. |
Sorrentino ZA, Xia Y, Funk C, Riffe CJ, Rutherford NJ, Ceballos Diaz C, Sacino AN, Price ND, Golde TE, Giasson BI, Chakrabarty P |
Neurobiology of disease |
30195075 |
Neurobiol Dis |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30195075 |
| Experiences with Deriva: An Asset Management Platform for Accelerating eScience. |
Bugacov A, Czajkowski K, Kesselman C, Kumar A, Schuler RE, Tangmunarunkit H |
Proceedings ... IEEE International Conference on eScience. IEEE International Conference on eScience |
29756001 |
Proc IEEE Int Conf Escience |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/29756001 |
| Magnitude and timing of major white matter tract maturation from infancy through adolescence with NODDI. |
Lynch KM, Cabeen RP, Toga AW, Clark KA |
NeuroImage |
32092432 |
Neuroimage |
2020 May 15 |
https://www.ncbi.nlm.nih.gov/pubmed/32092432 |
| Machine learning techniques for personalized breast cancer risk prediction: comparison with the BCRAT and BOADICEA models. |
Ming C, Viassolo V, Probst-Hensch N, Chappuis PO, Dinov ID, Katapodi MC |
Breast cancer research : BCR |
31221197 |
Breast Cancer Res |
2019 Jun 20 |
https://www.ncbi.nlm.nih.gov/pubmed/31221197 |
| Disruption and Compensation of Sulcation-based Covariance Networks in Neonatal Brain Growth after Perinatal Injury. |
Kim SY, Liu M, Hong SJ, Toga AW, Barkovich AJ, Xu D, Kim H |
Cerebral cortex (New York, N.Y. : 1991) |
32656563 |
Cereb Cortex |
2020 Nov 3 |
https://www.ncbi.nlm.nih.gov/pubmed/32656563 |
| Morphological Development Trajectory and Structural Covariance Network of the Human Fetal Cortical Plate during the Early Second Trimester. |
Xu F, Liu M, Kim SY, Ge X, Zhang Z, Tang Y, Lin X, Toga AW, Liu S, Kim H |
Cerebral cortex (New York, N.Y. : 1991) |
34017979 |
Cereb Cortex |
2021 Aug 26 |
https://www.ncbi.nlm.nih.gov/pubmed/34017979 |
| Reproducible big data science: A case study in continuous FAIRness. |
Madduri R, Chard K, D'Arcy M, Jung SC, Rodriguez A, Sulakhe D, Deutsch E, Funk C, Heavner B, Richards M, Shannon P, Glusman G, Price N, Kesselman C, Foster I |
PloS one |
30973881 |
PLoS One |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30973881 |
| Model-Based and Model-Free Techniques for Amyotrophic Lateral Sclerosis Diagnostic Prediction and Patient Clustering. |
Tang M, Gao C, Goutman SA, Kalinin A, Mukherjee B, Guan Y, Dinov ID |
Neuroinformatics |
30460455 |
Neuroinformatics |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30460455 |
| Neuroanatomical morphometric characterization of sex differences in youth using statistical learning. |
Sepehrband F, Lynch KM, Cabeen RP, Gonzalez-Zacarias C, Zhao L, D'Arcy M, Kesselman C, Herting MM, Dinov ID, Toga AW, Clark KA |
NeuroImage |
29414494 |
Neuroimage |
2018 May 15 |
https://www.ncbi.nlm.nih.gov/pubmed/29414494 |
| Randomization-Based Statistical Inference: A Resampling and Simulation Infrastructure. |
Dinov ID, Palanimalai S, Khare A, Christou N |
Teaching statistics |
30270947 |
Teach Stat |
2018 Summer |
https://www.ncbi.nlm.nih.gov/pubmed/30270947 |
| Quality control of large genome datasets. |
Robinson M, Joshi A, Vidyarthi A, Maccoun M, Rangavajjhala S, Glusman G |
HGG advances |
35789587 |
HGG Adv |
2022 Jul 14 |
https://www.ncbi.nlm.nih.gov/pubmed/35789587 |
| Microstructural mapping of dentate gyrus pathology in Alzheimer's disease: A 16.4 Tesla MRI study. |
Shih NC, Kurniawan ND, Cabeen RP, Korobkova L, Wong E, Chui HC, Clark KA, Miller CA, Hawes D, Jones KT, Sepehrband F |
NeuroImage. Clinical |
36630864 |
Neuroimage Clin |
2023 |
https://www.ncbi.nlm.nih.gov/pubmed/36630864 |
| Structural Brain Differences in the Alzheimer's Disease Continuum: Insights Into the Heterogeneity From a Large Multisite Neuroimaging Consortium. |
Evans TE, Vilor-Tejedor N, Operto G, Falcon C, Hofman A, Ibáñez A, Seshadari S, Tan LCS, Weiner M, Alladi S, Anazodo U, Gispert JD, Alzheimer’s Disease Neuroimaging Initiative, Australian Imaging Biomarkers and Lifestyle flagship study of ageing, Adams HHH |
Biological psychiatry. Cognitive neuroscience and neuroimaging |
39084525 |
Biol Psychiatry Cogn Neurosci Neuroimaging |
2025 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/39084525 |
| The Image and Data Archive at the Laboratory of Neuro Imaging. |
Crawford KL, Neu SC, Toga AW |
NeuroImage |
25982516 |
Neuroimage |
2016 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/25982516 |
| A comprehensive Candida albicans PeptideAtlas build enables deep proteome coverage. |
Vialas V, Sun Z, Reales-Calderón JA, Hernáez ML, Casas V, Carrascal M, Abián J, Monteoliva L, Deutsch EW, Moritz RL, Gil C |
Journal of proteomics |
26493587 |
J Proteomics |
2016 Jan 10 |
https://www.ncbi.nlm.nih.gov/pubmed/26493587 |
| The GAAIN Entity Mapper: An Active-Learning System for Medical Data Mapping. |
Ashish N, Dewan P, Toga AW |
Frontiers in neuroinformatics |
26793094 |
Front Neuroinform |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26793094 |
| The Alzheimer's Disease Neuroimaging Initiative informatics core: A decade in review. |
Toga AW, Crawford KL |
Alzheimer's & dementia : the journal of the Alzheimer's Association |
26194316 |
Alzheimers Dement |
2015 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/26194316 |
| The Pig PeptideAtlas: A resource for systems biology in animal production and biomedicine. |
Hesselager MO, Codrea MC, Sun Z, Deutsch EW, Bennike TB, Stensballe A, Bundgaard L, Moritz RL, Bendixen E |
Proteomics |
26699206 |
Proteomics |
2016 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/26699206 |
| Metrics for the Human Proteome Project 2016: Progress on Identifying and Characterizing the Human Proteome, Including Post-Translational Modifications. |
Omenn GS, Lane L, Lundberg EK, Beavis RC, Overall CM, Deutsch EW |
Journal of proteome research |
27487407 |
J Proteome Res |
2016 Nov 4 |
https://www.ncbi.nlm.nih.gov/pubmed/27487407 |
| Sharing big biomedical data. |
Toga AW, Dinov ID |
Journal of big data |
26929900 |
J Big Data |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26929900 |
| Brainhack: a collaborative workshop for the open neuroscience community. |
Cameron Craddock R, S Margulies D, Bellec P, Nolan Nichols B, Alcauter S, A Barrios F, Burnod Y, J Cannistraci C, Cohen-Adad J, De Leener B, Dery S, Downar J, Dunlop K, R Franco A, Seligman Froehlich C, J Gerber A, S Ghosh S, J Grabowski T, Hill S, Sólon Heinsfeld A, Matthew Hutchison R, Kundu P, R Laird A, Liew SL, J Lurie D, G McLaren D, Meneguzzi F, Mennes M, Mesmoudi S, O'Connor D, H Pasaye E, Peltier S, Poline JB, Prasad G, Fraga Pereira R, Quirion PO, Rokem A, S Saad Z, Shi Y, C Strother S, Toro R, Q Uddin L, D Van Horn J, W Van Meter J, C Welsh R, Xu T |
GigaScience |
27042293 |
Gigascience |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27042293 |
| Progress on Identifying and Characterizing the Human Proteome: 2018 Metrics from the HUPO Human Proteome Project. |
Omenn GS, Lane L, Overall CM, Corrales FJ, Schwenk JM, Paik YK, Van Eyk JE, Liu S, Snyder M, Baker MS, Deutsch EW |
Journal of proteome research |
30099871 |
J Proteome Res |
2018 Dec 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30099871 |
| Hippocampal Shape Maturation in Childhood and Adolescence. |
Lynch KM, Shi Y, Toga AW, Clark KA, Pediatric Imaging, Neurocognition and Genetics Study |
Cerebral cortex (New York, N.Y. : 1991) |
30272143 |
Cereb Cortex |
2019 Aug 14 |
https://www.ncbi.nlm.nih.gov/pubmed/30272143 |
| Model-based and Model-free Machine Learning Techniques for Diagnostic Prediction and Classification of Clinical Outcomes in Parkinson's Disease. |
Gao C, Sun H, Wang T, Tang M, Bohnen NI, Müller MLTM, Herman T, Giladi N, Kalinin A, Spino C, Dauer W, Hausdorff JM, Dinov ID |
Scientific reports |
29740058 |
Sci Rep |
2018 May 8 |
https://www.ncbi.nlm.nih.gov/pubmed/29740058 |
| Flexible and Fast Mapping of Peptides to a Proteome with ProteoMapper. |
Mendoza L, Deutsch EW, Sun Z, Campbell DS, Shteynberg DD, Moritz RL |
Journal of proteome research |
30230343 |
J Proteome Res |
2018 Dec 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30230343 |
| Interaction effect of alcohol consumption and Alzheimer disease polygenic risk score on the brain cortical thickness of cognitively normal subjects. |
Matloff WJ, Zhao L, Ning K, Conti DV, Toga AW |
Alcohol (Fayetteville, N.Y.) |
31734309 |
Alcohol |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31734309 |
| Proteomics Standards Initiative Extended FASTA Format. |
Binz PA, Shofstahl J, Vizcaíno JA, Barsnes H, Chalkley RJ, Menschaert G, Alpi E, Clauser K, Eng JK, Lane L, Seymour SL, Sánchez LFH, Mayer G, Eisenacher M, Perez-Riverol Y, Kapp EA, Mendoza L, Baker PR, Collins A, Van Den Bossche T, Deutsch EW |
Journal of proteome research |
31081335 |
J Proteome Res |
2019 Jun 7 |
https://www.ncbi.nlm.nih.gov/pubmed/31081335 |
| Progress on Identifying and Characterizing the Human Proteome: 2019 Metrics from the HUPO Human Proteome Project. |
Omenn GS, Lane L, Overall CM, Corrales FJ, Schwenk JM, Paik YK, Van Eyk JE, Liu S, Pennington S, Snyder MP, Baker MS, Deutsch EW |
Journal of proteome research |
31430157 |
J Proteome Res |
2019 Dec 6 |
https://www.ncbi.nlm.nih.gov/pubmed/31430157 |
| The effect of body mass index on hippocampal morphology and memory performance in late childhood and adolescence. |
Lynch KM, Page KA, Shi Y, Xiang AH, Toga AW, Clark KA |
Hippocampus |
33174346 |
Hippocampus |
2021 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/33174346 |
| Compressive Big Data Analytics: An ensemble meta-algorithm for high-dimensional multisource datasets. |
Marino S, Zhao Y, Zhou N, Zhou Y, Toga AW, Zhao L, Jian Y, Yang Y, Chen Y, Wu Q, Wild J, Cummings B, Dinov ID |
PloS one |
32857775 |
PLoS One |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32857775 |
| Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types. |
Funk CC, Casella AM, Jung S, Richards MA, Rodriguez A, Shannon P, Donovan-Maiye R, Heavner B, Chard K, Xiao Y, Glusman G, Ertekin-Taner N, Golde TE, Toga A, Hood L, Van Horn JD, Kesselman C, Foster I, Madduri R, Price ND, Ament SA |
Cell reports |
32814038 |
Cell Rep |
2020 Aug 18 |
https://www.ncbi.nlm.nih.gov/pubmed/32814038 |
| Translational MRI Volumetry with NeuroQuant: Effects of Version and Normative Data on Relationships with Memory Performance in Healthy Older Adults and Patients with Mild Cognitive Impairment. |
Stelmokas J, Yassay L, Giordani B, Dodge HH, Dinov ID, Bhaumik A, Sathian K, Hampstead BM |
Journal of Alzheimer's disease : JAD |
29060939 |
J Alzheimers Dis |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29060939 |
| Complete hazard ranking to analyze right-censored data: An ALS survival study. |
Huang Z, Zhang H, Boss J, Goutman SA, Mukherjee B, Dinov ID, Guan Y, Pooled Resource Open-Access ALS Clinical Trials Consortium |
PLoS computational biology |
29253881 |
PLoS Comput Biol |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29253881 |
| SNAPR: a bioinformatics pipeline for efficient and accurate RNA-seq alignment and analysis. |
Magis AT, Funk CC, Price ND |
IEEE life sciences letters |
29270443 |
IEEE Life Sci Lett |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29270443 |
| Recent publications from the Alzheimer's Disease Neuroimaging Initiative: Reviewing progress toward improved AD clinical trials. |
Weiner MW, Veitch DP, Aisen PS, Beckett LA, Cairns NJ, Green RC, Harvey D, Jack CR Jr, Jagust W, Morris JC, Petersen RC, Saykin AJ, Shaw LM, Toga AW, Trojanowski JQ, Alzheimer's Disease Neuroimaging Initiative |
Alzheimer's & dementia : the journal of the Alzheimer's Association |
28342697 |
Alzheimers Dement |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/28342697 |
| Transformation Invariant Control of Voxel-Wise False Discovery Rate. |
Li J, Shi Y, Toga AW |
IEEE transactions on medical imaging |
27101602 |
IEEE Trans Med Imaging |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/27101602 |
| Apolipoprotein E Genotype and Sex Risk Factors for Alzheimer Disease: A Meta-analysis. |
Neu SC, Pa J, Kukull W, Beekly D, Kuzma A, Gangadharan P, Wang LS, Romero K, Arneric SP, Redolfi A, Orlandi D, Frisoni GB, Au R, Devine S, Auerbach S, Espinosa A, Boada M, Ruiz A, Johnson SC, Koscik R, Wang JJ, Hsu WC, Chen YL, Toga AW |
JAMA neurology |
28846757 |
JAMA Neurol |
2017 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28846757 |
| Age-Related Differences in Brain Morphology and the Modifiers in Middle-Aged and Older Adults. |
Zhao L, Matloff W, Ning K, Kim H, Dinov ID, Toga AW |
Cerebral cortex (New York, N.Y. : 1991) |
30535294 |
Cereb Cortex |
2019 Sep 13 |
https://www.ncbi.nlm.nih.gov/pubmed/30535294 |
| Imputation Strategy for Reliable Regional MRI Morphological Measurements. |
Sta Cruz S, Dinov ID, Herting MM, González-Zacarías C, Kim H, Toga AW, Sepehrband F |
Neuroinformatics |
31054076 |
Neuroinformatics |
2020 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/31054076 |
| Analytic Tools for Post-traumatic Epileptogenesis Biomarker Search in Multimodal Dataset of an Animal Model and Human Patients. |
Duncan D, Barisano G, Cabeen R, Sepehrband F, Garner R, Braimah A, Vespa P, Pitkänen A, Law M, Toga AW |
Frontiers in neuroinformatics |
30618695 |
Front Neuroinform |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30618695 |
| Retrospective motion artifact correction of structural MRI images using deep learning improves the quality of cortical surface reconstructions. |
Duffy BA, Zhao L, Sepehrband F, Min J, Wang DJ, Shi Y, Toga AW, Kim H, Alzheimer's Disease Neuroimaging Initiative |
NeuroImage |
33460797 |
Neuroimage |
2021 Apr 15 |
https://www.ncbi.nlm.nih.gov/pubmed/33460797 |
| White matter hyperintensities segmentation using the ensemble U-Net with multi-scale highlighting foregrounds. |
Park G, Hong J, Duffy BA, Lee JM, Kim H |
NeuroImage |
33957235 |
Neuroimage |
2021 Aug 15 |
https://www.ncbi.nlm.nih.gov/pubmed/33957235 |
| Selective morphological and volumetric alterations in the hippocampus of children exposed in utero to gestational diabetes mellitus. |
Lynch KM, Alves JM, Chow T, Clark KA, Luo S, Toga AW, Xiang AH, Page KA |
Human brain mapping |
33764653 |
Hum Brain Mapp |
2021 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/33764653 |
| Brainhack: Developing a culture of open, inclusive, community-driven neuroscience. |
Gau R, Noble S, Heuer K, Bottenhorn KL, Bilgin IP, Yang YF, Huntenburg JM, Bayer JMM, Bethlehem RAI, Rhoads SA, Vogelbacher C, Borghesani V, Levitis E, Wang HT, Van Den Bossche S, Kobeleva X, Legarreta JH, Guay S, Atay SM, Varoquaux GP, Huijser DC, Sandström MS, Herholz P, Nastase SA, Badhwar A, Dumas G, Schwab S, Moia S, Dayan M, Bassil Y, Brooks PP, Mancini M, Shine JM, O'Connor D, Xie X, Poggiali D, Friedrich P, Heinsfeld AS, Riedl L, Toro R, Caballero-Gaudes C, Eklund A, Garner KG, Nolan CR, Demeter DV, Barrios FA, Merchant JS, McDevitt EA, Oostenveld R, Craddock RC, Rokem A, Doyle A, Ghosh SS, Nikolaidis A, Stanley OW, Uruñuela E, Brainhack Community |
Neuron |
33932337 |
Neuron |
2021 Jun 2 |
https://www.ncbi.nlm.nih.gov/pubmed/33932337 |
| Robust Cortical Thickness Morphometry of Neonatal Brain and Systematic Evaluation Using Multi-Site MRI Datasets. |
Liu M, Lepage C, Kim SY, Jeon S, Kim SH, Simon JP, Tanaka N, Yuan S, Islam T, Peng B, Arutyunyan K, Surento W, Kim J, Jahanshad N, Styner MA, Toga AW, Barkovich AJ, Xu D, Evans AC, Kim H |
Frontiers in neuroscience |
33815050 |
Front Neurosci |
2021 |
https://www.ncbi.nlm.nih.gov/pubmed/33815050 |
| Flipping the grant application review process. |
Dinov ID |
Studies in higher education |
36196072 |
Stud High Educ |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/36196072 |
| DataSifterText: Partially Synthetic Text Generation for Sensitive Clinical Notes. |
Zhou N, Wu Q, Wu Z, Marino S, Dinov ID |
Journal of medical systems |
36380246 |
J Med Syst |
2022 Nov 16 |
https://www.ncbi.nlm.nih.gov/pubmed/36380246 |
| Determinism, well-posedness, and applications of the ultrahyperbolic wave equation in spacekime. |
Wang Y, Shen Y, Deng D, Dinov ID |
Partial differential equations in applied mathematics : a spin-off of Applied Mathematics Letters |
36159725 |
Partial Differ Equ Appl Math |
2022 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/36159725 |
| Mapping Complex Brain Torque Components and Their Genetic Architecture and Phenomic Associations in 24,112 Individuals. |
Zhao L, Matloff W, Shi Y, Cabeen RP, Toga AW |
Biological psychiatry |
35027165 |
Biol Psychiatry |
2022 Apr 15 |
https://www.ncbi.nlm.nih.gov/pubmed/35027165 |
| Subcortical brain alterations in major depressive disorder: findings from the ENIGMA Major Depressive Disorder working group. |
Schmaal L, Veltman DJ, van Erp TG, Sämann PG, Frodl T, Jahanshad N, Loehrer E, Tiemeier H, Hofman A, Niessen WJ, Vernooij MW, Ikram MA, Wittfeld K, Grabe HJ, Block A, Hegenscheid K, Völzke H, Hoehn D, Czisch M, Lagopoulos J, Hatton SN, Hickie IB, Goya-Maldonado R, Krämer B, Gruber O, Couvy-Duchesne B, Rentería ME, Strike LT, Mills NT, de Zubicaray GI, McMahon KL, Medland SE, Martin NG, Gillespie NA, Wright MJ, Hall GB, MacQueen GM, Frey EM, Carballedo A, van Velzen LS, van Tol MJ, van der Wee NJ, Veer IM, Walter H, Schnell K, Schramm E, Normann C, Schoepf D, Konrad C, Zurowski B, Nickson T, McIntosh AM, Papmeyer M, Whalley HC, Sussmann JE, Godlewska BR, Cowen PJ, Fischer FH, Rose M, Penninx BW, Thompson PM, Hibar DP |
Molecular psychiatry |
26122586 |
Mol Psychiatry |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26122586 |
| Development of the human fetal hippocampal formation during early second trimester. |
Ge X, Shi Y, Li J, Zhang Z, Lin X, Zhan J, Ge H, Xu J, Yu Q, Leng Y, Teng G, Feng L, Meng H, Tang Y, Zang F, Toga AW, Liu S |
NeuroImage |
26123377 |
Neuroimage |
2015 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26123377 |
| Medical data transformation using rewriting. |
Ashish N, Toga AW |
Frontiers in neuroinformatics |
25750622 |
Front Neuroinform |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/25750622 |
| SOCR data dashboard: an integrated big data archive mashing medicare, labor, census and econometric information. |
Husain SS, Kalinin A, Truong A, Dinov ID |
Journal of big data |
26236573 |
J Big Data |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26236573 |
| Studying ventricular abnormalities in mild cognitive impairment with hyperbolic Ricci flow and tensor-based morphometry. |
Shi J, Stonnington CM, Thompson PM, Chen K, Gutman B, Reschke C, Baxter LC, Reiman EM, Caselli RJ, Wang Y, Alzheimer's Disease Neuroimaging Initiative |
NeuroImage |
25285374 |
Neuroimage |
2015 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/25285374 |
| MGH-USC Human Connectome Project datasets with ultra-high b-value diffusion MRI. |
Fan Q, Witzel T, Nummenmaa A, Van Dijk KRA, Van Horn JD, Drews MK, Somerville LH, Sheridan MA, Santillana RM, Snyder J, Hedden T, Shaw EE, Hollinshead MO, Renvall V, Zanzonico R, Keil B, Cauley S, Polimeni JR, Tisdall D, Buckner RL, Wedeen VJ, Wald LL, Toga AW, Rosen BR |
NeuroImage |
26364861 |
Neuroimage |
2016 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26364861 |
| Methodological challenges and analytic opportunities for modeling and interpreting Big Healthcare Data. |
Dinov ID |
GigaScience |
26918190 |
Gigascience |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/26918190 |
| Probability Distributome: A Web Computational Infrastructure for Exploring the Properties, Interrelations, and Applications of Probability Distributions. |
Dinov ID, Siegrist K, Pearl DK, Kalinin A, Christou N |
Computational statistics |
27158191 |
Comput Stat |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/27158191 |
| T2-Imaging Changes in the Nigrosome-1 Relate to Clinical Measures of Parkinson's Disease. |
Fu KA, Nathan R, Dinov ID, Li J, Toga AW |
Frontiers in neurology |
27812347 |
Front Neurol |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27812347 |
| Extension of research data repository system to support direct compute access to biomedical datasets: enhancing Dataverse to support large datasets. |
McKinney B, Meyer PA, Crosas M, Sliz P |
Annals of the New York Academy of Sciences |
27862010 |
Ann N Y Acad Sci |
2017 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/27862010 |
| Data publication with the structural biology data grid supports live analysis. |
Meyer PA, Socias S, Key J, Ransey E, Tjon EC, Buschiazzo A, Lei M, Botka C, Withrow J, Neau D, Rajashankar K, Anderson KS, Baxter RH, Blacklow SC, Boggon TJ, Bonvin AM, Borek D, Brett TJ, Caflisch A, Chang CI, Chazin WJ, Corbett KD, Cosgrove MS, Crosson S, Dhe-Paganon S, Di Cera E, Drennan CL, Eck MJ, Eichman BF, Fan QR, Ferré-D'Amaré AR, Fromme JC, Garcia KC, Gaudet R, Gong P, Harrison SC, Heldwein EE, Jia Z, Keenan RJ, Kruse AC, Kvansakul M, McLellan JS, Modis Y, Nam Y, Otwinowski Z, Pai EF, Pereira PJ, Petosa C, Raman CS, Rapoport TA, Roll-Mecak A, Rosen MK, Rudenko G, Schlessinger J, Schwartz TU, Shamoo Y, Sondermann H, Tao YJ, Tolia NH, Tsodikov OV, Westover KD, Wu H, Foster I, Fraser JS, Maia FR, Gonen T, Kirchhausen T, Diederichs K, Crosas M, Sliz P |
Nature communications |
26947396 |
Nat Commun |
2016 Mar 7 |
https://www.ncbi.nlm.nih.gov/pubmed/26947396 |
| Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 2.1. |
Deutsch EW, Overall CM, Van Eyk JE, Baker MS, Paik YK, Weintraub ST, Lane L, Martens L, Vandenbrouck Y, Kusebauch U, Hancock WS, Hermjakob H, Aebersold R, Moritz RL, Omenn GS |
Journal of proteome research |
27490519 |
J Proteome Res |
2016 Nov 4 |
https://www.ncbi.nlm.nih.gov/pubmed/27490519 |
| Predictive Big Data Analytics: A Study of Parkinson's Disease Using Large, Complex, Heterogeneous, Incongruent, Multi-Source and Incomplete Observations. |
Dinov ID, Heavner B, Tang M, Glusman G, Chard K, Darcy M, Madduri R, Pa J, Spino C, Kesselman C, Foster I, Deutsch EW, Price ND, Van Horn JD, Ames J, Clark K, Hood L, Hampstead BM, Dauer W, Toga AW |
PloS one |
27494614 |
PLoS One |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27494614 |
| Comparison of genomic data via statistical distribution. |
Amiri S, Dinov ID |
Journal of theoretical biology |
27460589 |
J Theor Biol |
2016 Oct 21 |
https://www.ncbi.nlm.nih.gov/pubmed/27460589 |
| Progress on the HUPO Draft Human Proteome: 2017 Metrics of the Human Proteome Project. |
Omenn GS, Lane L, Lundberg EK, Overall CM, Deutsch EW |
Journal of proteome research |
28853897 |
J Proteome Res |
2017 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28853897 |
| The Human Plasma Proteome Draft of 2017: Building on the Human Plasma PeptideAtlas from Mass Spectrometry and Complementary Assays. |
Schwenk JM, Omenn GS, Sun Z, Campbell DS, Baker MS, Overall CM, Aebersold R, Moritz RL, Deutsch EW |
Journal of proteome research |
28938075 |
J Proteome Res |
2017 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28938075 |
| Topographic Regularity for Tract Filtering in Brain Connectivity. |
Wang J, Aydogan DB, Varma R, Toga AW, Shi Y |
Information processing in medical imaging : proceedings of the ... conference |
28943732 |
Inf Process Med Imaging |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28943732 |
| The proBAM and proBed standard formats: enabling a seamless integration of genomics and proteomics data. |
Menschaert G, Wang X, Jones AR, Ghali F, Fenyö D, Olexiouk V, Zhang B, Deutsch EW, Ternent T, Vizcaíno JA |
Genome biology |
29386051 |
Genome Biol |
2018 Jan 31 |
https://www.ncbi.nlm.nih.gov/pubmed/29386051 |
| Proteomics Standards Initiative: Fifteen Years of Progress and Future Work. |
Deutsch EW, Orchard S, Binz PA, Bittremieux W, Eisenacher M, Hermjakob H, Kawano S, Lam H, Mayer G, Menschaert G, Perez-Riverol Y, Salek RM, Tabb DL, Tenzer S, Vizcaíno JA, Walzer M, Jones AR |
Journal of proteome research |
28849660 |
J Proteome Res |
2017 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28849660 |
| Structure and Protein Interaction-Based Gene Ontology Annotations Reveal Likely Functions of Uncharacterized Proteins on Human Chromosome 17. |
Zhang C, Wei X, Omenn GS, Zhang Y |
Journal of proteome research |
30265558 |
J Proteome Res |
2018 Dec 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30265558 |
| Genome-Scale Transcriptional Regulatory Network Models of Psychiatric and Neurodegenerative Disorders. |
Pearl JR, Colantuoni C, Bergey DE, Funk CC, Shannon P, Basu B, Casella AM, Oshone RT, Hood L, Price ND, Ament SA |
Cell systems |
30772379 |
Cell Syst |
2019 Feb 27 |
https://www.ncbi.nlm.nih.gov/pubmed/30772379 |
| Altered regional cerebral blood flow in obstructive sleep apnea is associated with sleep fragmentation and oxygen desaturation. |
Yan L, Park HR, Kezirian EJ, Yook S, Kim JH, Joo EY, Kim H |
Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism |
33906511 |
J Cereb Blood Flow Metab |
2021 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/33906511 |
| Cortical reorganization following auditory deprivation predicts cochlear implant performance in postlingually deaf adults. |
Sun Z, Seo JW, Park HJ, Lee JY, Kwak MY, Kim Y, Lee JY, Park JW, Kang WS, Ahn JH, Chung JW, Kim H |
Human brain mapping |
33022826 |
Hum Brain Mapp |
2021 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33022826 |
| The open diffusion data derivatives, brain data upcycling via integrated publishing of derivatives and reproducible open cloud services. |
Avesani P, McPherson B, Hayashi S, Caiafa CF, Henschel R, Garyfallidis E, Kitchell L, Bullock D, Patterson A, Olivetti E, Sporns O, Saykin AJ, Wang L, Dinov I, Hancock D, Caron B, Qian Y, Pestilli F |
Scientific data |
31123325 |
Sci Data |
2019 May 23 |
https://www.ncbi.nlm.nih.gov/pubmed/31123325 |
| Protocol Update for large-scale genome and gene function analysis with the PANTHER classification system (v.14.0). |
Mi H, Muruganujan A, Huang X, Ebert D, Mills C, Guo X, Thomas PD |
Nature protocols |
30804569 |
Nat Protoc |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30804569 |
| Neuroimaging PheWAS (Phenome-Wide Association Study): A Free Cloud-Computing Platform for Big-Data, Brain-Wide Imaging Association Studies. |
Zhao L, Batta I, Matloff W, O'Driscoll C, Hobel S, Toga AW |
Neuroinformatics |
32822005 |
Neuroinformatics |
2021 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/32822005 |
| Association of relative brain age with tobacco smoking, alcohol consumption, and genetic variants. |
Ning K, Zhao L, Matloff W, Sun F, Toga AW |
Scientific reports |
32001736 |
Sci Rep |
2020 Jan 30 |
https://www.ncbi.nlm.nih.gov/pubmed/32001736 |
| Identification of Dysregulated Genes for Late-Onset Alzheimer's Disease Using Gene Expression Data in Brain. |
Arzouni N, Matloff W, Zhao L, Ning K, Toga AW |
Journal of Alzheimer's disease & Parkinsonism |
33282526 |
J Alzheimers Dis Parkinsonism |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/33282526 |
| Expanding the Use of Spectral Libraries in Proteomics. |
Deutsch EW, Perez-Riverol Y, Chalkley RJ, Wilhelm M, Tate S, Sachsenberg T, Walzer M, Käll L, Delanghe B, Böcker S, Schymanski EL, Wilmes P, Dorfer V, Kuster B, Volders PJ, Jehmlich N, Vissers JPC, Wolan DW, Wang AY, Mendoza L, Shofstahl J, Dowsey AW, Griss J, Salek RM, Neumann S, Binz PA, Lam H, Vizcaíno JA, Bandeira N, Röst H |
Journal of proteome research |
30270626 |
J Proteome Res |
2018 Dec 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30270626 |
| APOEɛ4 Gene Dose and Sex Effects on Alzheimer's Disease MRI Biomarkers in Older Adults with Mild Cognitive Impairment. |
Hobel Z, Isenberg AL, Raghupathy D, Mack W, Pa J, Alzheimer’s Disease Neuroimaging Initiative and the Australian Imaging Biomarkers and Lifestyle flagship study of ageing |
Journal of Alzheimer's disease : JAD |
31424388 |
J Alzheimers Dis |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31424388 |
| Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 3.0. |
Deutsch EW, Lane L, Overall CM, Bandeira N, Baker MS, Pineau C, Moritz RL, Corrales F, Orchard S, Van Eyk JE, Paik YK, Weintraub ST, Vandenbrouck Y, Omenn GS |
Journal of proteome research |
31599596 |
J Proteome Res |
2019 Dec 6 |
https://www.ncbi.nlm.nih.gov/pubmed/31599596 |
| Big data sharing and analysis to advance research in post-traumatic epilepsy. |
Duncan D, Vespa P, Pitkänen A, Braimah A, Lapinlampi N, Toga AW |
Neurobiology of disease |
29864492 |
Neurobiol Dis |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/29864492 |
| Associations between contralesional neuroplasticity and motor impairment through deep learning-derived MRI regional brain age in chronic stroke (ENIGMA): a multicohort, retrospective, observational study. |
Park G, Khan MH, Andrushko JW, Banaj N, Borich MR, Boyd LA, Brodtmann A, Brown TR, Buetefisch CM, Conforto AB, Cramer SC, Dimyan M, Domin M, Donnelly MR, Egorova-Brumley N, Ermer ER, Feng W, Geranmayeh F, Hanlon CA, Hordacre B, Jahanshad N, Kautz SA, Khlif MS, Liu J, Lotze M, MacIntosh BJ, Mohamed FB, Nordvik JE, Piras F, Revill KP, Robertson AD, Schranz C, Schweighofer N, Seo NJ, Soekadar SR, Srivastava S, Tavenner BP, Thielman GT, Thomopoulos SI, Vecchio D, Werden E, Westlye LT, Winstein CJ, Wittenberg GF, Ferris JK, Yu C, Thompson PM, Liew SL, Kim H |
The Lancet. Digital health |
41577565 |
Lancet Digit Health |
2026 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/41577565 |
| Processing shotgun proteomics data on the Amazon cloud with the trans-proteomic pipeline. |
Slagel J, Mendoza L, Shteynberg D, Deutsch EW, Moritz RL |
Molecular & cellular proteomics : MCP |
25418363 |
Mol Cell Proteomics |
2015 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/25418363 |
| Volume and Value of Big Healthcare Data. |
Dinov ID |
Journal of medical statistics and informatics |
26998309 |
J Med Stat Inform |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/26998309 |
| ERMrest: A Collaborative Data Catalog with Fine Grain Access Control. |
Czajkowski K, Kesselman C, Schuler R |
Proceedings ... IEEE International Conference on eScience. IEEE International Conference on eScience |
29756002 |
Proc IEEE Int Conf Escience |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/29756002 |
| Deep learning in pharmacogenomics: from gene regulation to patient stratification. |
Kalinin AA, Higgins GA, Reamaroon N, Soroushmehr S, Allyn-Feuer A, Dinov ID, Najarian K, Athey BD |
Pharmacogenomics |
29697304 |
Pharmacogenomics |
2018 May |
https://www.ncbi.nlm.nih.gov/pubmed/29697304 |
| Controlled feature selection and compressive big data analytics: Applications to biomedical and health studies. |
Marino S, Xu J, Zhao Y, Zhou N, Zhou Y, Dinov ID |
PloS one |
30161148 |
PLoS One |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30161148 |
| 3D Shape Modeling for Cell Nuclear Morphological Analysis and Classification. |
Kalinin AA, Allyn-Feuer A, Ade A, Fon GV, Meixner W, Dilworth D, Husain SS, de Wet JR, Higgins GA, Zheng G, Creekmore A, Wiley JW, Verdone JE, Veltri RW, Pienta KJ, Coffey DS, Athey BD, Dinov ID |
Scientific reports |
30209281 |
Sci Rep |
2018 Sep 12 |
https://www.ncbi.nlm.nih.gov/pubmed/30209281 |
| Using Virtual Reality to Improve Performance and User Experience in Manual Correction of MRI Segmentation Errors by Non-experts. |
Duncan D, Garner R, Zrantchev I, Ard T, Newman B, Saslow A, Wanserski E, Toga AW |
Journal of digital imaging |
30030766 |
J Digit Imaging |
2019 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/30030766 |
| Multi-Template Mesiotemporal Lobe Segmentation: Effects of Surface and Volume Feature Modeling. |
Kim H, Caldairou B, Bernasconi A, Bernasconi N |
Frontiers in neuroinformatics |
30050423 |
Front Neuroinform |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30050423 |
| A Tandem Mass Spectrometry Sequence Database Search Method for Identification of O-Fucosylated Proteins by Mass Spectrometry. |
Swearingen KE, Eng JK, Shteynberg D, Vigdorovich V, Springer TA, Mendoza L, Sather DN, Deutsch EW, Kappe SHI, Moritz RL |
Journal of proteome research |
30523691 |
J Proteome Res |
2019 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30523691 |
| State of the Human Proteome in 2014/2015 As Viewed through PeptideAtlas: Enhancing Accuracy and Coverage through the AtlasProphet. |
Deutsch EW, Sun Z, Campbell D, Kusebauch U, Chu CS, Mendoza L, Shteynberg D, Omenn GS, Moritz RL |
Journal of proteome research |
26139527 |
J Proteome Res |
2015 Sep 4 |
https://www.ncbi.nlm.nih.gov/pubmed/26139527 |
| Big biomedical data as the key resource for discovery science. |
Toga AW, Foster I, Kesselman C, Madduri R, Chard K, Deutsch EW, Price ND, Glusman G, Heavner BD, Dinov ID, Ames J, Van Horn J, Kramer R, Hood L |
Journal of the American Medical Informatics Association : JAMIA |
26198305 |
J Am Med Inform Assoc |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26198305 |
| Controlling False Discovery Rate in Signal Space for Transformation-Invariant Thresholding of Statistical Maps. |
Li J, Shi Y, Toga AW |
Information processing in medical imaging : proceedings of the ... conference |
26213450 |
Inf Process Med Imaging |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26213450 |
| Tiered Human Integrated Sequence Search Databases for Shotgun Proteomics. |
Deutsch EW, Sun Z, Campbell DS, Binz PA, Farrah T, Shteynberg D, Mendoza L, Omenn GS, Moritz RL |
Journal of proteome research |
27577934 |
J Proteome Res |
2016 Nov 4 |
https://www.ncbi.nlm.nih.gov/pubmed/27577934 |
| PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements. |
Mi H, Huang X, Muruganujan A, Tang H, Mills C, Kang D, Thomas PD |
Nucleic acids research |
27899595 |
Nucleic Acids Res |
2017 Jan 4 |
https://www.ncbi.nlm.nih.gov/pubmed/27899595 |
| PTMProphet: Fast and Accurate Mass Modification Localization for the Trans-Proteomic Pipeline. |
Shteynberg DD, Deutsch EW, Campbell DS, Hoopmann MR, Kusebauch U, Lee D, Mendoza L, Midha MK, Sun Z, Whetton AD, Moritz RL |
Journal of proteome research |
31290668 |
J Proteome Res |
2019 Dec 6 |
https://www.ncbi.nlm.nih.gov/pubmed/31290668 |
| Predictive Big Data Analytics using the UK Biobank Data. |
Zhou Y, Zhao L, Zhou N, Zhao Y, Marino S, Wang T, Sun H, Toga AW, Dinov ID |
Scientific reports |
30979917 |
Sci Rep |
2019 Apr 12 |
https://www.ncbi.nlm.nih.gov/pubmed/30979917 |
| Ultrafast Comparison of Personal Genomes via Precomputed Genome Fingerprints. |
Glusman G, Mauldin DE, Hood LE, Robinson M |
Frontiers in genetics |
29018478 |
Front Genet |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29018478 |
| Gene interactions and structural brain change in early-onset Alzheimer's disease subjects using the pipeline environment. |
Moon SW, Dinov ID, Zamanyan A, Shi R, Genco A, Hobel S, Thompson PM, Toga AW, Alzheimer's Disease Neuroimaging Initiative (ADNI) |
Psychiatry investigation |
25670955 |
Psychiatry Investig |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25670955 |
| Structural Neuroimaging Genetics Interactions in Alzheimer's Disease. |
Moon SW, Dinov ID, Kim J, Zamanyan A, Hobel S, Thompson PM, Toga AW |
Journal of Alzheimer's disease : JAD |
26444770 |
J Alzheimers Dis |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26444770 |
| Global Data Sharing in Alzheimer Disease Research. |
Ashish N, Bhatt P, Toga AW |
Alzheimer disease and associated disorders |
26523713 |
Alzheimer Dis Assoc Disord |
2016 Apr-Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26523713 |
| From a deep learning model back to the brain-Identifying regional predictors and their relation to aging. |
Levakov G, Rosenthal G, Shelef I, Raviv TR, Avidan G |
Human brain mapping |
32320123 |
Hum Brain Mapp |
2020 Aug 15 |
https://www.ncbi.nlm.nih.gov/pubmed/32320123 |
| Modernizing the Methods and Analytics Curricula for Health Science Doctoral Programs. |
Dinov ID |
Frontiers in public health |
32117857 |
Front Public Health |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32117857 |
| Improving brain age estimates with deep learning leads to identification of novel genetic factors associated with brain aging. |
Ning K, Duffy BA, Franklin M, Matloff W, Zhao L, Arzouni N, Sun F, Toga AW |
Neurobiology of aging |
34098431 |
Neurobiol Aging |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/34098431 |
| International Multicenter Analysis of Brain Structure Across Clinical Stages of Parkinson's Disease. |
Laansma MA, Bright JK, Al-Bachari S, Anderson TJ, Ard T, Assogna F, Baquero KA, Berendse HW, Blair J, Cendes F, Dalrymple-Alford JC, de Bie RMA, Debove I, Dirkx MF, Druzgal J, Emsley HCA, Garraux G, Guimarães RP, Gutman BA, Helmich RC, Klein JC, Mackay CE, McMillan CT, Melzer TR, Parkes LM, Piras F, Pitcher TL, Poston KL, Rango M, Ribeiro LF, Rocha CS, Rummel C, Santos LSR, Schmidt R, Schwingenschuh P, Spalletta G, Squarcina L, van den Heuvel OA, Vriend C, Wang JJ, Weintraub D, Wiest R, Yasuda CL, Jahanshad N, Thompson PM, van der Werf YD, ENIGMA-Parkinson's Study |
Movement disorders : official journal of the Movement Disorder Society |
34288137 |
Mov Disord |
2021 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/34288137 |
| LEARNING TO SYNTHESIZE CORTICAL MORPHOLOGICAL CHANGES USING GRAPH CONDITIONAL VARIATIONAL AUTOENCODER. |
Chai Y, Liu M, Duffy BA, Kim H |
Proceedings. IEEE International Symposium on Biomedical Imaging |
35330877 |
Proc IEEE Int Symp Biomed Imaging |
2021 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/35330877 |
| Predicting brain age based on sleep EEG and DenseNet. |
Yook S, Miao Y, Park C, Park HR, Kim J, Lim DC, Yeon Joo E, Kim H |
Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference |
34891282 |
Annu Int Conf IEEE Eng Med Biol Soc |
2021 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/34891282 |
| Three-dimensional self-attention conditional GAN with spectral normalization for multimodal neuroimaging synthesis. |
Lan H, Alzheimer Disease Neuroimaging Initiative, Toga AW, Sepehrband F |
Magnetic resonance in medicine |
33961321 |
Magn Reson Med |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/33961321 |
| Classifying migraine using PET compressive big data analytics of brain's μ-opioid and D2/D3 dopamine neurotransmission. |
Marino S, Jassar H, Kim DJ, Lim M, Nascimento TD, Dinov ID, Koeppe RA, DaSilva AF |
Frontiers in pharmacology |
37383727 |
Front Pharmacol |
2023 |
https://www.ncbi.nlm.nih.gov/pubmed/37383727 |
| DataSifter II: Partially synthetic data sharing of sensitive information containing time-varying correlated observations. |
Zhou N, Wang L, Marino S, Zhao Y, Dinov ID |
Journal of algorithms & computational technology |
36274750 |
J Algorithm Comput Technol |
2022 |
https://www.ncbi.nlm.nih.gov/pubmed/36274750 |
| Different effects of cardiometabolic syndrome on brain age in relation to gender and ethnicity. |
Kang SH, Liu M, Park G, Kim SY, Lee H, Matloff W, Zhao L, Yoo H, Kim JP, Jang H, Kim HJ, Jahanshad N, Oh K, Koh SB, Na DL, Gallacher J, Gottesman RF, Seo SW, Kim H |
Alzheimer's research & therapy |
36998058 |
Alzheimers Res Ther |
2023 Mar 30 |
https://www.ncbi.nlm.nih.gov/pubmed/36998058 |
| Effects of Three Motivationally Targeted Mobile Device Applications on Initial Physical Activity and Sedentary Behavior Change in Midlife and Older Adults: A Randomized Trial. |
King AC, Hekler EB, Grieco LA, Winter SJ, Sheats JL, Buman MP, Banerjee B, Robinson TN, Cirimele J |
PloS one |
27352250 |
PLoS One |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27352250 |
| Taming the Wild: A Unified Analysis of Hogwild!-Style Algorithms. |
De Sa C, Zhang C, Olukotun K, Ré C |
Advances in neural information processing systems |
27330264 |
Adv Neural Inf Process Syst |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27330264 |
| Network analysis: a novel method for mapping neonatal acute transport patterns in California. |
Kunz SN, Zupancic JAF, Rigdon J, Phibbs CS, Lee HC, Gould JB, Leskovec J, Profit J |
Journal of perinatology : official journal of the California Perinatal Association |
28333155 |
J Perinatol |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28333155 |
| DeepDive: Declarative Knowledge Base Construction. |
De Sa C, Ratner A, Ré C, Shin J, Wang F, Wu S, Zhang C |
SIGMOD record |
28344371 |
SIGMOD Rec |
2016 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28344371 |
| Digital Health: Tracking Physiomes and Activity Using Wearable Biosensors Reveals Useful Health-Related Information. |
Li X, Dunn J, Salins D, Zhou G, Zhou W, Schüssler-Fiorenza Rose SM, Perelman D, Colbert E, Runge R, Rego S, Sonecha R, Datta S, McLaughlin T, Snyder MP |
PLoS biology |
28081144 |
PLoS Biol |
2017 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/28081144 |
| Gait biomechanics in the era of data science. |
Ferber R, Osis ST, Hicks JL, Delp SL |
Journal of biomechanics |
27814971 |
J Biomech |
2016 Dec 8 |
https://www.ncbi.nlm.nih.gov/pubmed/27814971 |
| Higher-order organization of complex networks. |
Benson AR, Gleich DF, Leskovec J |
Science (New York, N.Y.) |
27387949 |
Science |
2016 Jul 8 |
https://www.ncbi.nlm.nih.gov/pubmed/27387949 |
| Network Lasso: Clustering and Optimization in Large Graphs. |
Hallac D, Leskovec J, Boyd S |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
27398260 |
KDD |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/27398260 |
| Perspectives on Sharing Models and Related Resources in Computational Biomechanics Research. |
Erdemir A, Hunter PJ, Holzapfel GA, Loew LM, Middleton J, Jacobs CR, Nithiarasu P, Löhner R, Wei G, Winkelstein BA, Barocas VH, Guilak F, Ku JP, Hicks JL, Delp SL, Sacks M, Weiss JA, Ateshian GA, Maas SA, McCulloch AD, Peng GCY |
Journal of biomechanical engineering |
29247253 |
J Biomech Eng |
2018 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29247253 |
| Simulating ideal assistive devices to reduce the metabolic cost of walking with heavy loads. |
Dembia CL, Silder A, Uchida TK, Hicks JL, Delp SL |
PloS one |
28700630 |
PLoS One |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28700630 |
| Toeplitz Inverse Covariance-Based Clustering of Multivariate Time Series Data. |
Hallac D, Vare S, Boyd S, Leskovec J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
29770257 |
KDD |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29770257 |
| The Selective Labels Problem: Evaluating Algorithmic Predictions in the Presence of Unobservables. |
Lakkaraju H, Kleinberg J, Leskovec J, Ludwig J, Mullainathan S |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
29780658 |
KDD |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29780658 |
| Talking the Walk: Perceptions of Neighborhood Characteristics from Users of Open Streets Programs in Latin America and the USA. |
Zieff SG, Musselman EA, Sarmiento OL, Gonzalez SA, Aguilar-Farias N, Winter SJ, Hipp JA, Quijano K, King AC |
Journal of urban health : bulletin of the New York Academy of Medicine |
29948785 |
J Urban Health |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29948785 |
| Snorkel: Rapid Training Data Creation with Weak Supervision. |
Ratner A, Bach SH, Ehrenberg H, Fries J, Wu S, Ré C |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
29770249 |
Proceedings VLDB Endowment |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/29770249 |
| Modeling Interdependent and Periodic Real-World Action Sequences. |
Kurashima T, Althoff T, Leskovec J |
Proceedings of the ... International World-Wide Web Conference. International WWW Conference |
29780977 |
Proc Int World Wide Web Conf |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29780977 |
| Credibility, Replicability, and Reproducibility in Simulation for Biomedicine and Clinical Applications in Neuroscience. |
Mulugeta L, Drach A, Erdemir A, Hunt CA, Horner M, Ku JP, Myers JG Jr, Vadigepalli R, Lytton WW |
Frontiers in neuroinformatics |
29713272 |
Front Neuroinform |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29713272 |
| Multimodal Teaching Analytics: Automated Extraction of Orchestration Graphs from Wearable Sensor Data. |
Prieto LP, Sharma K, Kidzinski Ł, Rodríguez-Triana MJ, Dillenbourg P |
Journal of computer assisted learning |
29686446 |
J Comput Assist Learn |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29686446 |
| Snorkel: rapid training data creation with weak supervision. |
Ratner A, Bach SH, Ehrenberg H, Fries J, Wu S, Ré C |
The VLDB journal : very large data bases : a publication of the VLDB Endowment |
32214778 |
VLDB J |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32214778 |
| Scene Graph Prediction with Limited Labels. |
Chen VS, Varma P, Krishna R, Bernstein M, Ré C, Fei-Fei L |
Proceedings. IEEE International Conference on Computer Vision |
32218709 |
Proc IEEE Int Conf Comput Vis |
2019 Oct-Nov |
https://www.ncbi.nlm.nih.gov/pubmed/32218709 |
| GNNExplainer: Generating Explanations for Graph Neural Networks. |
Ying R, Bourgeois D, You J, Zitnik M, Leskovec J |
Advances in neural information processing systems |
32265580 |
Adv Neural Inf Process Syst |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/32265580 |
| G2SAT: Learning to Generate SAT Formulas. |
You J, Wu H, Barrett C, Ramanujan R, Leskovec J |
Advances in neural information processing systems |
32265581 |
Adv Neural Inf Process Syst |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/32265581 |
| Cross-Modal Data Programming Enables Rapid Medical Machine Learning. |
Dunnmon JA, Ratner AJ, Saab K, Khandwala N, Markert M, Sagreiya H, Goldman R, Lee-Messer C, Lungren MP, Rubin DL, Ré C |
Patterns (New York, N.Y.) |
32776018 |
Patterns (N Y) |
2020 May 8 |
https://www.ncbi.nlm.nih.gov/pubmed/32776018 |
| Hidden Stratification Causes Clinically Meaningful Failures in Machine Learning for Medical Imaging. |
Oakden-Rayner L, Dunnmon J, Carneiro G, Ré C |
Proceedings of the ACM Conference on Health, Inference, and Learning |
33196064 |
Proc ACM Conf Health Inference Learn (2020) |
2020 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/33196064 |
| Comparison of segmentation-free and segmentation-dependent computer-aided diagnosis of breast masses on a public mammography dataset. |
Sawyer Lee R, Dunnmon JA, He A, Tang S, Ré C, Rubin DL |
Journal of biomedical informatics |
33309994 |
J Biomed Inform |
2021 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33309994 |
| Enhancing safe routes to school programs through community-engaged citizen science: two pilot investigations in lower density areas of Santa Clara County, California, USA. |
Rodriguez NM, Arce A, Kawaguchi A, Hua J, Broderick B, Winter SJ, King AC |
BMC public health |
30823917 |
BMC Public Health |
2019 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30823917 |
| Inferring Generative Model Structure with Static Analysis. |
Varma P, He B, Bajaj P, Banerjee I, Khandwala N, Rubin DL, Ré C |
Advances in neural information processing systems |
29391769 |
Adv Neural Inf Process Syst |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29391769 |
| Anyone Can Become a Troll: Causes of Trolling Behavior in Online Discussions. |
Cheng J, Bernstein M, Danescu-Niculescu-Mizil C, Leskovec J |
CSCW : proceedings of the Conference on Computer-Supported Cooperative Work. Conference on Computer-Supported Cooperative Work |
29399664 |
CSCW Conf Comput Support Coop Work |
2017 Feb-Mar |
https://www.ncbi.nlm.nih.gov/pubmed/29399664 |
| Estimating the effect size of surgery to improve walking in children with cerebral palsy from retrospective observational clinical data. |
Rajagopal A, Kidziński Ł, McGlaughlin AS, Hicks JL, Delp SL, Schwartz MH |
Scientific reports |
30397268 |
Sci Rep |
2018 Nov 5 |
https://www.ncbi.nlm.nih.gov/pubmed/30397268 |
| Physical activity is associated with changes in knee cartilage microstructure. |
Halilaj E, Hastie TJ, Gold GE, Delp SL |
Osteoarthritis and cartilage |
29605382 |
Osteoarthritis Cartilage |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29605382 |
| Validity of Cardiorespiratory Fitness Measured with Fitbit Compared to V˙O2max. |
Klepin K, Wing D, Higgins M, Nichols J, Godino JG |
Medicine and science in sports and exercise |
31107835 |
Med Sci Sports Exerc |
2019 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/31107835 |
| Muscle Contributions to Upper-Extremity Movement and Work From a Musculoskeletal Model of the Human Shoulder. |
Seth A, Dong M, Matias R, Delp S |
Frontiers in neurorobotics |
31780916 |
Front Neurorobot |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31780916 |
| Coupled exoskeleton assistance simplifies control and maintains metabolic benefits: A simulation study. |
Bianco NA, Franks PW, Hicks JL, Delp SL |
PloS one |
34986191 |
PLoS One |
2022 |
https://www.ncbi.nlm.nih.gov/pubmed/34986191 |
| Large-scale diet tracking data reveal disparate associations between food environment and diet. |
Althoff T, Nilforoshan H, Hua J, Leskovec J |
Nature communications |
35042849 |
Nat Commun |
2022 Jan 18 |
https://www.ncbi.nlm.nih.gov/pubmed/35042849 |
| Daily, weekly, seasonal and menstrual cycles in women's mood, behaviour and vital signs. |
Pierson E, Althoff T, Thomas D, Hillard P, Leskovec J |
Nature human behaviour |
33526880 |
Nat Hum Behav |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/33526880 |
| Snuba: Automating Weak Supervision to Label Training Data. |
Varma P, Ré C |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
31777681 |
Proceedings VLDB Endowment |
2018 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/31777681 |
| Benchmarking explanation methods for mental state decoding with deep learning models. |
Thomas AW, Ré C, Poldrack RA |
NeuroImage |
37059157 |
Neuroimage |
2023 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/37059157 |
| Towards trustworthy seizure onset detection using workflow notes. |
Saab K, Tang S, Taha M, Lee-Messer C, Ré C, Rubin DL |
NPJ digital medicine |
38383884 |
NPJ Digit Med |
2024 Feb 21 |
https://www.ncbi.nlm.nih.gov/pubmed/38383884 |
| Bringing Micro to the Macro: How Citizen Science Data Enrich Geospatial Visualizations to Advance Health Equity. |
Soltani S, Hinman JA, Blanco-Velazquez I, Banchoff AW, Campero MI, Nelson LM, King AC |
Journal of maps |
37448978 |
J Maps |
2023 |
https://www.ncbi.nlm.nih.gov/pubmed/37448978 |
| The Use of Behavior Change Techniques and Theory in Technologies for Cardiovascular Disease Prevention and Treatment in Adults: A Comprehensive Review. |
Winter SJ, Sheats JL, King AC |
Progress in cardiovascular diseases |
26902519 |
Prog Cardiovasc Dis |
2016 May-Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26902519 |
| Large-scale extraction of gene interactions from full-text literature using DeepDive. |
Mallory EK, Zhang C, Ré C, Altman RB |
Bioinformatics (Oxford, England) |
26338771 |
Bioinformatics |
2016 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26338771 |
| CVXPY: A Python-Embedded Modeling Language for Convex Optimization. |
Diamond S, Boyd S |
Journal of machine learning research : JMLR |
27375369 |
J Mach Learn Res |
2016 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/27375369 |
| Rapidly Mixing Gibbs Sampling for a Class of Factor Graphs Using Hierarchy Width. |
De Sa C, Zhang C, Olukotun K, Ré C |
Advances in neural information processing systems |
27279724 |
Adv Neural Inf Process Syst |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27279724 |
| Tensor Spectral Clustering for Partitioning Higher-order Network Structures. |
Benson AR, Gleich DF, Leskovec J |
Proceedings of the ... SIAM International Conference on Data Mining. SIAM International Conference on Data Mining |
27812399 |
Proc SIAM Int Conf Data Min |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/27812399 |
| Growing Wikipedia Across Languages via Recommendation. |
Wulczyn E, West R, Zia L, Leskovec J |
Proceedings of the ... International World-Wide Web Conference. International WWW Conference |
27819073 |
Proc Int World Wide Web Conf |
2016 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/27819073 |
| Bias correction in species distribution models: pooling survey and collection data for multiple species. |
Fithian W, Elith J, Hastie T, Keith DA |
Methods in ecology and evolution |
27840673 |
Methods Ecol Evol |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/27840673 |
| Some methods for heterogeneous treatment effect estimation in high dimensions. |
Powers S, Qian J, Jung K, Schuler A, Shah NH, Hastie T, Tibshirani R |
Statistics in medicine |
29508417 |
Stat Med |
2018 May 20 |
https://www.ncbi.nlm.nih.gov/pubmed/29508417 |
| Machine learning in human movement biomechanics: Best practices, common pitfalls, and new opportunities. |
Halilaj E, Rajagopal A, Fiterau M, Hicks JL, Hastie TJ, Delp SL |
Journal of biomechanics |
30279002 |
J Biomech |
2018 Nov 16 |
https://www.ncbi.nlm.nih.gov/pubmed/30279002 |
| I'll Be Back: On the Multiple Lives of Users of a Mobile Activity Tracking Application. |
Lin Z, Althoff T, Leskovec J |
Proceedings of the ... International World-Wide Web Conference. International WWW Conference |
29780978 |
Proc Int World Wide Web Conf |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29780978 |
| Weighted SGD for ℓ (p) Regression with Randomized Preconditioning. |
Yang J, Chow YL, Ré C, Mahoney MW |
Proceedings of the ... Annual ACM-SIAM Symposium on Discrete Algorithms. ACM-SIAM Symposium on Discrete Algorithms |
29782626 |
Proc Annu ACM SIAM Symp Discret Algorithms |
2016 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/29782626 |
| Acute changes in foot strike pattern and cadence affect running parameters associated with tibial stress fractures. |
Yong JR, Silder A, Montgomery KL, Fredericson M, Delp SL |
Journal of biomechanics |
29866518 |
J Biomech |
2018 Jul 25 |
https://www.ncbi.nlm.nih.gov/pubmed/29866518 |
| Prioritizing network communities. |
Zitnik M, Sosič R, Leskovec J |
Nature communications |
29959323 |
Nat Commun |
2018 Jun 29 |
https://www.ncbi.nlm.nih.gov/pubmed/29959323 |
| Wearables and the medical revolution. |
Dunn J, Runge R, Snyder M |
Personalized medicine |
30259801 |
Per Med |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/30259801 |
| Understanding and Optimizing Asynchronous Low-Precision Stochastic Gradient Descent. |
De Sa C, Feldman M, Ré C, Olukotun K |
Proceedings. International Symposium on Computer Architecture |
29391770 |
Proc Int Symp Comput Archit |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29391770 |
| Loyalty in Online Communities. |
Hamilton WL, Zhang J, Danescu-Niculescu-Mizil C, Jurafsky D, Leskovec J |
Proceedings of the ... International AAAI Conference on Weblogs and Social Media. International AAAI Conference on Weblogs and Social Media |
29354326 |
Proc Int AAAI Conf Weblogs Soc Media |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/29354326 |
| EmptyHeaded: A Relational Engine for Graph Processing. |
Aberger CR, Tu S, Olukotun K, Ré C |
Proceedings. ACM-SIGMOD International Conference on Management of Data |
28077912 |
Proc ACM SIGMOD Int Conf Manag Data |
2016 Jun-Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28077912 |
| Snorkel DryBell: A Case Study in Deploying Weak Supervision at Industrial Scale. |
Bach SH, Rodriguez D, Liu Y, Luo C, Shao H, Xia C, Sen S, Ratner A, Hancock B, Alborzi H, Kuchhal R, Ré C, Malkin R |
Proceedings. ACM-SIGMOD International Conference on Management of Data |
31777414 |
Proc ACM SIGMOD Int Conf Manag Data |
2019 Jun-Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31777414 |
| Low-Precision Random Fourier Features for Memory-Constrained Kernel Approximation. |
Zhang J, May A, Dao T, Ré C |
Proceedings of machine learning research |
31777846 |
Proc Mach Learn Res |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31777846 |
| Learning Fast Algorithms for Linear Transforms Using Butterfly Factorizations. |
Dao T, Gu A, Eichhorn M, Rudra A, Ré C |
Proceedings of machine learning research |
31777847 |
Proc Mach Learn Res |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31777847 |
| Predicting Dynamic Embedding Trajectory in Temporal Interaction Networks. |
Kumar S, Zhang X, Leskovec J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
31538030 |
KDD |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31538030 |
| Inferring Multidimensional Rates of Aging from Cross-Sectional Data. |
Pierson E, Koh PW, Hashimoto T, Koller D, Leskovec J, Eriksson N, Liang P |
Proceedings of machine learning research |
31538144 |
Proc Mach Learn Res |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31538144 |
| Best practices for analyzing large-scale health data from wearables and smartphone apps. |
Hicks JL, Althoff T, Sosic R, Kuhar P, Bostjancic B, King AC, Leskovec J, Delp SL |
NPJ digital medicine |
31304391 |
NPJ Digit Med |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31304391 |
| Rapid energy expenditure estimation for ankle assisted and inclined loaded walking. |
Slade P, Troutman R, Kochenderfer MJ, Collins SH, Delp SL |
Journal of neuroengineering and rehabilitation |
31171003 |
J Neuroeng Rehabil |
2019 Jun 6 |
https://www.ncbi.nlm.nih.gov/pubmed/31171003 |
| Accelerated Stochastic Power Iteration. |
De Sa C, He B, Mitliagkas I, Ré C, Xu P |
Proceedings of machine learning research |
31187095 |
Proc Mach Learn Res |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/31187095 |
| Learning Compressed Transforms with Low Displacement Rank. |
Thomas AT, Gu A, Dao T, Rudra A, Ré C |
Advances in neural information processing systems |
31130799 |
Adv Neural Inf Process Syst |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/31130799 |
| Representation Tradeoffs for Hyperbolic Embeddings. |
De Sa C, Gu A, Ré C, Sala F |
Proceedings of machine learning research |
31131375 |
Proc Mach Learn Res |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/31131375 |
| Weak supervision as an efficient approach for automated seizure detection in electroencephalography. |
Saab K, Dunnmon J, Ré C, Rubin D, Lee-Messer C |
NPJ digital medicine |
32352037 |
NPJ Digit Med |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32352037 |
| Objective measurement of function following lumbar spinal stenosis decompression reveals improved functional capacity with stagnant real-life physical activity. |
Smuck M, Muaremi A, Zheng P, Norden J, Sinha A, Hu R, Tomkins-Lane C |
The spine journal : official journal of the North American Spine Society |
28962914 |
Spine J |
2018 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/28962914 |
| How Gamification Affects Physical Activity: Large-scale Analysis of Walking Challenges in a Mobile Application. |
Shameli A, Althoff T, Saberi A, Leskovec J |
Proceedings of the ... International World-Wide Web Conference. International WWW Conference |
28990011 |
Proc Int World Wide Web Conf |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/28990011 |
| Citizen science applied to building healthier community environments: advancing the field through shared construct and measurement development. |
Hinckson E, Schneider M, Winter SJ, Stone E, Puhan M, Stathi A, Porter MM, Gardiner PA, Dos Santos DL, Wolff A, King AC |
The international journal of behavioral nutrition and physical activity |
28962580 |
Int J Behav Nutr Phys Act |
2017 Sep 29 |
https://www.ncbi.nlm.nih.gov/pubmed/28962580 |
| Muscle-tendon mechanics explain unexpected effects of exoskeleton assistance on metabolic rate during walking. |
Jackson RW, Dembia CL, Delp SL, Collins SH |
The Journal of experimental biology |
28341663 |
J Exp Biol |
2017 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28341663 |
| Donor Retention in Online Crowdfunding Communities: A Case Study of DonorsChoose.org. |
Althoff T, Leskovec J |
Proceedings of the ... International World-Wide Web Conference. International WWW Conference |
27077139 |
Proc Int World Wide Web Conf |
2015 May |
https://www.ncbi.nlm.nih.gov/pubmed/27077139 |
| Online Actions with Offline Impact: How Online Social Networks Influence Online and Offline User Behavior. |
Althoff T, Jindal P, Leskovec J |
Proceedings of the ... International Conference on Web Search & Data Mining. International Conference on Web Search & Data Mining |
28345078 |
Proc Int Conf Web Search Data Min |
2017 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/28345078 |
| Flexible Analog Search with Kernel PCA Embedded Molecule Vectors. |
Rensi S, Altman RB |
Computational and structural biotechnology journal |
28458783 |
Comput Struct Biotechnol J |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28458783 |
| Learning the Structure of Generative Models without Labeled Data. |
Bach SH, He B, Ratner A, Ré C |
Proceedings of machine learning research |
30882087 |
Proc Mach Learn Res |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30882087 |
| An Acute Randomized Controlled Trial of Noninvasive Peripheral Nerve Stimulation in Essential Tremor. |
Pahwa R, Dhall R, Ostrem J, Gwinn R, Lyons K, Ro S, Dietiker C, Luthra N, Chidester P, Hamner S, Ross E, Delp S |
Neuromodulation : journal of the International Neuromodulation Society |
30701655 |
Neuromodulation |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30701655 |
| Automatic real-time gait event detection in children using deep neural networks. |
Kidziński Ł, Delp S, Schwartz M |
PloS one |
30703141 |
PLoS One |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30703141 |
| Machine Learning for Integrating Data in Biology and Medicine: Principles, Practice, and Opportunities. |
Zitnik M, Nguyen F, Wang B, Leskovec J, Goldenberg A, Hoffman MM |
An international journal on information fusion |
30467459 |
Inf Fusion |
2019 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/30467459 |
| Learning one's genetic risk changes physiology independent of actual genetic risk. |
Turnwald BP, Goyer JP, Boles DZ, Silder A, Delp SL, Crum AJ |
Nature human behaviour |
30932047 |
Nat Hum Behav |
2019 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/30932047 |
| Sensing leg movement enhances wearable monitoring of energy expenditure. |
Slade P, Kochenderfer MJ, Delp SL, Collins SH |
Nature communications |
34257310 |
Nat Commun |
2021 Jul 13 |
https://www.ncbi.nlm.nih.gov/pubmed/34257310 |
| Testing the effectiveness of community-engaged citizen science to promote physical activity, foster healthier neighborhood environments, and advance health equity in vulnerable communities: The Steps for Change randomized controlled trial design and methods. |
King AC, Campero MI, Garcia D, Blanco-Velazquez I, Banchoff A, Fierros F, Escobar M, Cortes AL, Sheats JL, Hua J, Chazaro A, Done M, Espinosa PR, Vuong D, Ahn DK |
Contemporary clinical trials |
34371162 |
Contemp Clin Trials |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/34371162 |
| Survival of Hydroxyapatite-Coated Versus Non-hydroxyapatite-Coated Total Hip Arthroplasty Implants in a Veteran Population. |
Tyagi V, Harris AHS, Giori NJ |
The Journal of arthroplasty |
35219818 |
J Arthroplasty |
2022 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/35219818 |
| The mobilize center: an NIH big data to knowledge center to advance human movement research and improve mobility. |
Ku JP, Hicks JL, Hastie T, Leskovec J, Ré C, Delp SL |
Journal of the American Medical Informatics Association : JAMIA |
26272077 |
J Am Med Inform Assoc |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26272077 |
| Simulation-Based Design for Wearable Robotic Systems: An Optimization Framework for Enhancing a Standing Long Jump. |
Ong CF, Hicks JL, Delp SL |
IEEE transactions on bio-medical engineering |
26258930 |
IEEE Trans Biomed Eng |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/26258930 |
| Mindtagger: A Demonstration of Data Labeling in Knowledge Base Construction. |
Shin J, Ré C, Cafarella M |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
27144082 |
Proceedings VLDB Endowment |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/27144082 |
| Full-Body Musculoskeletal Model for Muscle-Driven Simulation of Human Gait. |
Rajagopal A, Dembia CL, DeMers MS, Delp DD, Hicks JL, Delp SL |
IEEE transactions on bio-medical engineering |
27392337 |
IEEE Trans Biomed Eng |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/27392337 |
| Caffe con Troll: Shallow Ideas to Speed Up Deep Learning. |
Hadjis S, Abuzaid F, Zhang C, Ré C |
Proceedings of the Fourth Workshop on Data analytics at sCale (DanaC 2015) : May 31st, 2015, Melbourne, Australia. Workshop on Data Analytics in the Cloud (4th : 2015 : Melbourne, Vic.) |
27314106 |
Proc Fourth Workshop Data Anal Scale Danac 2015 (2015) |
2015 May-Jun |
https://www.ncbi.nlm.nih.gov/pubmed/27314106 |
| Development of a dynamic computational model of social cognitive theory. |
Riley WT, Martin CA, Rivera DE, Hekler EB, Adams MA, Buman MP, Pavel M, King AC |
Translational behavioral medicine |
27848208 |
Transl Behav Med |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27848208 |
| Ringo: Interactive Graph Analytics on Big-Memory Machines. |
Perez Y, Sosič R, Banerjee A, Puttagunta R, Raison M, Shah P, Leskovec J |
Proceedings. ACM-SIGMOD International Conference on Management of Data |
27081215 |
Proc ACM SIGMOD Int Conf Manag Data |
2015 May-Jun |
https://www.ncbi.nlm.nih.gov/pubmed/27081215 |
| node2vec: Scalable Feature Learning for Networks. |
Grover A, Leskovec J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
27853626 |
KDD |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/27853626 |
| Interpretable Decision Sets: A Joint Framework for Description and Prediction. |
Lakkaraju H, Bach SH, Jure L |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
27853627 |
KDD |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/27853627 |
| Objective measurement of free-living physical activity (performance) in lumbar spinal stenosis: are physical activity guidelines being met? |
Norden J, Smuck M, Sinha A, Hu R, Tomkins-Lane C |
The spine journal : official journal of the North American Spine Society |
27793759 |
Spine J |
2017 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/27793759 |
| Physical performance analysis: A new approach to assessing free-living physical activity in musculoskeletal pain and mobility-limited populations. |
Smuck M, Tomkins-Lane C, Ith MA, Jarosz R, Kao MJ |
PloS one |
28235039 |
PLoS One |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28235039 |
| Inducing Domain-Specific Sentiment Lexicons from Unlabeled Corpora. |
Hamilton WL, Clark K, Leskovec J, Jurafsky D |
Proceedings of the Conference on Empirical Methods in Natural Language Processing. Conference on Empirical Methods in Natural Language Processing |
28660257 |
Proc Conf Empir Methods Nat Lang Process |
2016 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/28660257 |
| Modeling polypharmacy side effects with graph convolutional networks. |
Zitnik M, Agrawal M, Leskovec J |
Bioinformatics (Oxford, England) |
29949996 |
Bioinformatics |
2018 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29949996 |
| Gaussian Quadrature for Kernel Features. |
Dao T, De Sa C, Ré C |
Advances in neural information processing systems |
29398882 |
Adv Neural Inf Process Syst |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29398882 |
| Community Identity and User Engagement in a Multi-Community Landscape. |
Zhang J, Hamilton WL, Danescu-Niculescu-Mizil C, Jurafsky D, Leskovec J |
Proceedings of the ... International AAAI Conference on Weblogs and Social Media. International AAAI Conference on Weblogs and Social Media |
29354325 |
Proc Int AAAI Conf Weblogs Soc Media |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/29354325 |
| Fonduer: Knowledge Base Construction from Richly Formatted Data. |
Wu S, Hsiao L, Cheng X, Hancock B, Rekatsinas T, Levis P, Ré C |
Proceedings. ACM-SIGMOD International Conference on Management of Data |
29937618 |
Proc ACM SIGMOD Int Conf Manag Data |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29937618 |
| SNAP: A General Purpose Network Analysis and Graph Mining Library. |
Leskovec J, Sosič R |
ACM transactions on intelligent systems and technology |
28344853 |
ACM Trans Intell Syst Technol |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28344853 |
| Large-scale physical activity data reveal worldwide activity inequality. |
Althoff T, Sosič R, Hicks JL, King AC, Delp SL, Leskovec J |
Nature |
28693034 |
Nature |
2017 Jul 20 |
https://www.ncbi.nlm.nih.gov/pubmed/28693034 |
| Predicting multicellular function through multi-layer tissue networks. |
Zitnik M, Leskovec J |
Bioinformatics (Oxford, England) |
28881986 |
Bioinformatics |
2017 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/28881986 |
| Large-scale analysis of disease pathways in the human interactome. |
Agrawal M, Zitnik M, Leskovec J |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
29218874 |
Pac Symp Biocomput |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29218874 |
| Extracting Databases from Dark Data with DeepDive. |
Zhang C, Shin J, Ré C, Cafarella M, Niu F |
Proceedings. ACM-SIGMOD International Conference on Management of Data |
28316365 |
Proc ACM SIGMOD Int Conf Manag Data |
2016 Jun-Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28316365 |
| Cultural Shift or Linguistic Drift? Comparing Two Computational Measures of Semantic Change. |
Hamilton WL, Leskovec J, Jurafsky D |
Proceedings of the Conference on Empirical Methods in Natural Language Processing. Conference on Empirical Methods in Natural Language Processing |
28580459 |
Proc Conf Empir Methods Nat Lang Process |
2016 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/28580459 |
| Scan Order in Gibbs Sampling: Models in Which it Matters and Bounds on How Much. |
He B, De Sa C, Mitliagkas I, Ré C |
Advances in neural information processing systems |
28344429 |
Adv Neural Inf Process Syst |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/28344429 |
| Ensuring Rapid Mixing and Low Bias for Asynchronous Gibbs Sampling. |
De Sa C, Olukotun K, Ré C |
JMLR workshop and conference proceedings |
28344730 |
JMLR Workshop Conf Proc |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/28344730 |
| Large-scale Analysis of Counseling Conversations: An Application of Natural Language Processing to Mental Health. |
Althoff T, Clark K, Leskovec J |
Transactions of the Association for Computational Linguistics |
28344978 |
Trans Assoc Comput Linguist |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/28344978 |
| Shallow Representation Learning via Kernel PCA Improves QSAR Modelability. |
Rensi SE, Altman RB |
Journal of chemical information and modeling |
28727421 |
J Chem Inf Model |
2017 Aug 28 |
https://www.ncbi.nlm.nih.gov/pubmed/28727421 |
| Modeling and predicting osteoarthritis progression: data from the osteoarthritis initiative. |
Halilaj E, Le Y, Hicks JL, Hastie TJ, Delp SL |
Osteoarthritis and cartilage |
30130590 |
Osteoarthritis Cartilage |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30130590 |
| Prospector Heads: Generalized Feature Attribution for Large Models & Data. |
Machiraju G, Derry A, Desai A, Guha N, Karimi AH, Zou J, Altman RB, Ré C, Mallick P |
ArXiv |
38947933 |
ArXiv |
2024 Jun 20 |
https://www.ncbi.nlm.nih.gov/pubmed/38947933 |
| Modeling longitudinal data using matrix completion. |
Kidziński Ł, Hastie T |
Journal of computational and graphical statistics : a joint publication of American Statistical Association, Institute of Mathematical Statistics, Interface Foundation of North America |
38993268 |
J Comput Graph Stat |
2024 |
https://www.ncbi.nlm.nih.gov/pubmed/38993268 |
| Serving Up FLAN. A Food Literacy and Nutrition Intervention to Fend Off Food Insecurity. |
Royer MF, Hauser ME, Zamora AN, Campero MI, Garcia D, Gabaray M, Sheats JL, King AC |
Research square |
38766254 |
Res Sq |
2024 May 7 |
https://www.ncbi.nlm.nih.gov/pubmed/38766254 |
| Open Source Software for Automatic Subregional Assessment of Knee Cartilage Degradation Using Quantitative T2 Relaxometry and Deep Learning. |
Thomas KA, Krzemiński D, Kidziński Ł, Paul R, Rubin EB, Halilaj E, Black MS, Chaudhari A, Gold GE, Delp SL |
Cartilage |
34496667 |
Cartilage |
2021 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/34496667 |
| Evolution of resilience in protein interactomes across the tree of life. |
Zitnik M, Sosič R, Feldman MW, Leskovec J |
Proceedings of the National Academy of Sciences of the United States of America |
30765515 |
Proc Natl Acad Sci U S A |
2019 Mar 5 |
https://www.ncbi.nlm.nih.gov/pubmed/30765515 |
| ShortFuse: Biomedical Time Series Representations in the Presence of Structured Information. |
Fiterau M, Bhooshan S, Fries J, Bournhonesque C, Hicks J, Halilaj E, Ré C, Delp S |
Proceedings of machine learning research |
30882086 |
Proc Mach Learn Res |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30882086 |
| Predicting pregnancy using large-scale data from a women's health tracking mobile application. |
Liu B, Shi S, Wu Y, Thomas D, Symul L, Pierson E, Leskovec J |
Proceedings of the ... International World-Wide Web Conference. International WWW Conference |
31538145 |
Proc Int World Wide Web Conf |
2019 May |
https://www.ncbi.nlm.nih.gov/pubmed/31538145 |
| Weakly supervised classification of aortic valve malformations using unlabeled cardiac MRI sequences. |
Fries JA, Varma P, Chen VS, Xiao K, Tejeda H, Saha P, Dunnmon J, Chubb H, Maskatia S, Fiterau M, Delp S, Ashley E, Ré C, Priest JR |
Nature communications |
31308376 |
Nat Commun |
2019 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/31308376 |
| Assessment of Extractability and Accuracy of Electronic Health Record Data for Joint Implant Registries. |
Giori NJ, Radin J, Callahan A, Fries JA, Halilaj E, Ré C, Delp SL, Shah NH, Harris AHS |
JAMA network open |
33720372 |
JAMA Netw Open |
2021 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/33720372 |
| Wearable sensors enable personalized predictions of clinical laboratory measurements. |
Dunn J, Kidzinski L, Runge R, Witt D, Hicks JL, Schüssler-Fiorenza Rose SM, Li X, Bahmani A, Delp SL, Hastie T, Snyder MP |
Nature medicine |
34031607 |
Nat Med |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/34031607 |
| Training Classifiers with Natural Language Explanations. |
Hancock B, Bringmann M, Varma P, Liang P, Wang S, Ré C |
Proceedings of the conference. Association for Computational Linguistics. Meeting |
31130772 |
Proc Conf Assoc Comput Linguist Meet |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31130772 |
| A two-pronged progress in structured dense matrixvector multiplication. |
De Sa C, Gu A, Puttagunta R, Ré C, Rudra A |
Proceedings of the ... Annual ACM-SIAM Symposium on Discrete Algorithms. ACM-SIAM Symposium on Discrete Algorithms |
31130802 |
Proc Annu ACM SIAM Symp Discret Algorithms |
2018 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/31130802 |
| Exploring the Utility of Developer Exhaust. |
Zhang J, Lam M, Wang S, Varma P, Nardi L, Olukotun K, Ré C |
Proceedings of the Second Workshop on Data Management for End-to-End Machine Learning. Workshop on Data Management for End-to-End Machine Learning (2nd : 2018 : Houston, Tex.) |
31131381 |
Proc Second Workshop Data Manag End End Mach Learn (2018) |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31131381 |
| The turning and barrier course reveals gait parameters for detecting freezing of gait and measuring the efficacy of deep brain stimulation. |
O'Day J, Syrkin-Nikolau J, Anidi C, Kidzinski L, Delp S, Bronte-Stewart H |
PloS one |
32348346 |
PLoS One |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32348346 |
| Engaging citizen scientists to build healthy park environments in Colombia. |
Rubio MA, Triana C, King AC, Rosas LG, Banchoff AW, Rubiano O, Chrisinger BW, Sarmiento OL |
Health promotion international |
32361761 |
Health Promot Int |
2021 Mar 12 |
https://www.ncbi.nlm.nih.gov/pubmed/32361761 |
| Goal-setting And Achievement In Activity Tracking Apps: A Case Study Of MyFitnessPal. |
Gordon ML, Althoff T, Leskovec J |
Proceedings of the ... International World-Wide Web Conference. International WWW Conference |
32368761 |
Proc Int World Wide Web Conf |
2019 May |
https://www.ncbi.nlm.nih.gov/pubmed/32368761 |
| Snorkel MeTaL: Weak Supervision for Multi-Task Learning. |
Ratner A, Hancock B, Dunnmon J, Goldman R, Ré C |
Proceedings of the Second Workshop on Data Management for End-to-End Machine Learning. Workshop on Data Management for End-to-End Machine Learning (2nd : 2018 : Houston, Tex.) |
30931438 |
Proc Second Workshop Data Manag End End Mach Learn (2018) |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/30931438 |
| Potential corner case cautions regarding publicly available implementations of the National Cancer Institute's nonwear/wear classification algorithm for accelerometer data. |
Moore HE 4th, Haydel KF, Banda JA, Fiterau M, Desai M, Robinson TN |
PloS one |
30596771 |
PLoS One |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30596771 |
| Personal Omics for Precision Health. |
Kellogg RA, Dunn J, Snyder MP |
Circulation research |
29700064 |
Circ Res |
2018 Apr 27 |
https://www.ncbi.nlm.nih.gov/pubmed/29700064 |
| Sequence modeling and design from molecular to genome scale with Evo. |
Nguyen E, Poli M, Durrant MG, Kang B, Katrekar D, Li DB, Bartie LJ, Thomas AW, King SH, Brixi G, Sullivan J, Ng MY, Lewis A, Lou A, Ermon S, Baccus SA, Hernandez-Boussard T, Ré C, Hsu PD, Hie BL |
Science (New York, N.Y.) |
39541441 |
Science |
2024 Nov 15 |
https://www.ncbi.nlm.nih.gov/pubmed/39541441 |
| Foot strike pattern during running alters muscle-tendon dynamics of the gastrocnemius and the soleus. |
Yong JR, Dembia CL, Silder A, Jackson RW, Fredericson M, Delp SL |
Scientific reports |
32245985 |
Sci Rep |
2020 Apr 3 |
https://www.ncbi.nlm.nih.gov/pubmed/32245985 |
| Hyperbolic Graph Convolutional Neural Networks. |
Chami I, Ying R, Ré C, Leskovec J |
Advances in neural information processing systems |
32256024 |
Adv Neural Inf Process Syst |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/32256024 |
| OpenSim Moco: Musculoskeletal optimal control. |
Dembia CL, Bianco NA, Falisse A, Hicks JL, Delp SL |
PLoS computational biology |
33370252 |
PLoS Comput Biol |
2020 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/33370252 |
| The emerging clinical role of wearables: factors for successful implementation in healthcare. |
Smuck M, Odonkor CA, Wilt JK, Schmidt N, Swiernik MA |
NPJ digital medicine |
33692479 |
NPJ Digit Med |
2021 Mar 10 |
https://www.ncbi.nlm.nih.gov/pubmed/33692479 |
| Network enhancement as a general method to denoise weighted biological networks. |
Wang B, Pourshafeie A, Zitnik M, Zhu J, Bustamante CD, Batzoglou S, Leskovec J |
Nature communications |
30082777 |
Nat Commun |
2018 Aug 6 |
https://www.ncbi.nlm.nih.gov/pubmed/30082777 |
| High-frequency actionable pathogenic exome variants in an average-risk cohort. |
Rego S, Dagan-Rosenfeld O, Zhou W, Sailani MR, Limcaoco P, Colbert E, Avina M, Wheeler J, Craig C, Salins D, Röst HL, Dunn J, McLaughlin T, Steinmetz LM, Bernstein JA, Snyder MP |
Cold Spring Harbor molecular case studies |
30487145 |
Cold Spring Harb Mol Case Stud |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30487145 |
| Training Complex Models with Multi-Task Weak Supervision. |
Ratner A, Hancock B, Dunnmon J, Sala F, Pandey S, Ré C |
Proceedings of the ... AAAI Conference on Artificial Intelligence. AAAI Conference on Artificial Intelligence |
31565535 |
Proc AAAI Conf Artif Intell |
2019 Jan-Feb |
https://www.ncbi.nlm.nih.gov/pubmed/31565535 |
| Countrywide natural experiment links built environment to physical activity. |
Althoff T, Ivanovic B, King AC, Hicks JL, Delp SL, Leskovec J |
Nature |
40804514 |
Nature |
2025 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/40804514 |
| Population-Scale Pervasive Health. |
Althoff T |
IEEE pervasive computing |
29770105 |
IEEE Pervasive Comput |
2017 Oct-Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29770105 |
| Maximizing the promise of citizen science to advance health and prevent disease. |
King AC, Winter SJ, Chrisinger BW, Hua J, Banchoff AW |
Preventive medicine |
30593793 |
Prev Med |
2019 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/30593793 |
| HUMAN DECISIONS AND MACHINE PREDICTIONS. |
Kleinberg J, Lakkaraju H, Leskovec J, Ludwig J, Mullainathan S |
The quarterly journal of economics |
29755141 |
Q J Econ |
2018 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29755141 |
| Network Inference via the Time-Varying Graphical Lasso. |
Hallac D, Park Y, Boyd S, Leskovec J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
29770256 |
KDD |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29770256 |
| Local Higher-Order Graph Clustering. |
Yin H, Benson AR, Leskovec J, Gleich DF |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
29770258 |
KDD |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29770258 |
| Modeling Individual Cyclic Variation in Human Behavior. |
Pierson E, Althoff T, Leskovec J |
Proceedings of the ... International World-Wide Web Conference. International WWW Conference |
29780976 |
Proc Int World Wide Web Conf |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29780976 |
| Data Programming: Creating Large Training Sets, Quickly. |
Ratner A, De Sa C, Wu S, Selsam D, Ré C |
Advances in neural information processing systems |
29872252 |
Adv Neural Inf Process Syst |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29872252 |
| OpenSim: Simulating musculoskeletal dynamics and neuromuscular control to study human and animal movement. |
Seth A, Hicks JL, Uchida TK, Habib A, Dembia CL, Dunne JJ, Ong CF, DeMers MS, Rajagopal A, Millard M, Hamner SR, Arnold EM, Yong JR, Lakshmikanth SK, Sherman MA, Ku JP, Delp SL |
PLoS computational biology |
30048444 |
PLoS Comput Biol |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30048444 |
| Simulating Ideal Assistive Devices to Reduce the Metabolic Cost of Running. |
Uchida TK, Seth A, Pouya S, Dembia CL, Hicks JL, Delp SL |
PloS one |
27656901 |
PLoS One |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27656901 |
| Preparatory co-activation of the ankle muscles may prevent ankle inversion injuries. |
DeMers MS, Hicks JL, Delp SL |
Journal of biomechanics |
28057351 |
J Biomech |
2017 Feb 8 |
https://www.ncbi.nlm.nih.gov/pubmed/28057351 |
| Medical device surveillance with electronic health records. |
Callahan A, Fries JA, Ré C, Huddleston JI 3rd, Giori NJ, Delp S, Shah NH |
NPJ digital medicine |
31583282 |
NPJ Digit Med |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31583282 |
| Predicting gait adaptations due to ankle plantarflexor muscle weakness and contracture using physics-based musculoskeletal simulations. |
Ong CF, Geijtenbeek T, Hicks JL, Delp SL |
PLoS computational biology |
31589597 |
PLoS Comput Biol |
2019 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/31589597 |
| Standardizing Analytic Methods and Reporting in Activity Monitor Validation Studies. |
Welk GJ, Bai Y, Lee JM, Godino J, Saint-Maurice PF, Carr L |
Medicine and science in sports and exercise |
30913159 |
Med Sci Sports Exerc |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30913159 |
| Wearable Sleep Technology in Clinical and Research Settings. |
de Zambotti M, Cellini N, Goldstone A, Colrain IM, Baker FC |
Medicine and science in sports and exercise |
30789439 |
Med Sci Sports Exerc |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30789439 |
| Learning the Network Structure of Heterogeneous Data via Pairwise Exponential Markov Random Fields. |
Park Y, Hallac D, Boyd S, Leskovec J |
Proceedings of machine learning research |
30931433 |
Proc Mach Learn Res |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30931433 |
| Learning to Compose Domain-Specific Transformations for Data Augmentation. |
Ratner AJ, Ehrenberg HR, Hussain Z, Dunnmon J, Ré C |
Advances in neural information processing systems |
29375240 |
Adv Neural Inf Process Syst |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29375240 |
| SnapVX: A Network-Based Convex Optimization Solver. |
Hallac D, Wong C, Diamond S, Sharang A, Sosič R, Boyd S, Leskovec J |
Journal of machine learning research : JMLR |
29599649 |
J Mach Learn Res |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29599649 |
| Testing the comparative effects of physical activity advice by humans vs. computers in underserved populations: The COMPASS trial design, methods, and baseline characteristics. |
King AC, Campero I, Sheats JL, Castro Sweet CM, Garcia D, Chazaro A, Blanco G, Hauser M, Fierros F, Ahn DK, Diaz J, Done M, Fernandez J, Bickmore T |
Contemporary clinical trials |
28739541 |
Contemp Clin Trials |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28739541 |
| A Database Framework for Classifier Engineering. |
Kimelfeld B, Ré C |
CEUR workshop proceedings. |
27274719 |
CEUR Workshop Proc |
2015 May |
https://www.ncbi.nlm.nih.gov/pubmed/27274719 |
| Leveraging Citizen Science and Information Technology for Population Physical Activity Promotion. |
King AC, Winter SJ, Sheats JL, Rosas LG, Buman MP, Salvo D, Rodriguez NM, Seguin RA, Moran M, Garber R, Broderick B, Zieff SG, Sarmiento OL, Gonzalez SA, Banchoff A, Dommarco JR |
Translational journal of the American College of Sports Medicine |
27525309 |
Transl J Am Coll Sports Med |
2016 May 15 |
https://www.ncbi.nlm.nih.gov/pubmed/27525309 |
| Incremental Knowledge Base Construction Using DeepDive. |
Shin J, Wu S, Wang F, De Sa C, Zhang C, Ré C |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
27144081 |
Proceedings VLDB Endowment |
2015 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/27144081 |
| Stretching Your Energetic Budget: How Tendon Compliance Affects the Metabolic Cost of Running. |
Uchida TK, Hicks JL, Dembia CL, Delp SL |
PloS one |
26930416 |
PLoS One |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/26930416 |
| Cardiac Imaging of Aortic Valve Area From 34 287 UK Biobank Participants Reveals Novel Genetic Associations and Shared Genetic Comorbidity With Multiple Disease Phenotypes. |
Córdova-Palomera A, Tcheandjieu C, Fries JA, Varma P, Chen VS, Fiterau M, Xiao K, Tejeda H, Keavney BD, Cordell HJ, Tanigawa Y, Venkataraman G, Rivas MA, Ré C, Ashley E, Priest JR |
Circulation. Genomic and precision medicine |
33125279 |
Circ Genom Precis Med |
2020 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/33125279 |
| High-fidelity musculoskeletal modeling reveals that motor planning variability contributes to the speed-accuracy tradeoff. |
Al Borno M, Vyas S, Shenoy KV, Delp SL |
eLife |
33325369 |
Elife |
2020 Dec 16 |
https://www.ncbi.nlm.nih.gov/pubmed/33325369 |
| Automated Classification of Radiographic Knee Osteoarthritis Severity Using Deep Neural Networks. |
Thomas KA, Kidziński Ł, Halilaj E, Fleming SL, Venkataraman GR, Oei EHG, Gold GE, Delp SL |
Radiology. Artificial intelligence |
32280948 |
Radiol Artif Intell |
2020 Mar 18 |
https://www.ncbi.nlm.nih.gov/pubmed/32280948 |
| The effects of motor modularity on performance, learning and generalizability in upper-extremity reaching: a computational analysis. |
Al Borno M, Hicks JL, Delp SL |
Journal of the Royal Society, Interface |
32486950 |
J R Soc Interface |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/32486950 |
| Pre-operative gastrocnemius lengths in gait predict outcomes following gastrocnemius lengthening surgery in children with cerebral palsy. |
Rajagopal A, Kidziński Ł, McGlaughlin AS, Hicks JL, Delp SL, Schwartz MH |
PloS one |
32502157 |
PLoS One |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32502157 |
| Testing the effectiveness of physical activity advice delivered via text messaging vs. human phone advisors in a Latino population: The On The Move randomized controlled trial design and methods. |
King AC, Campero I, Sheats JL, Castro Sweet CM, Espinosa PR, Garcia D, Hauser M, Done M, Patel ML, Parikh NM, Corral C, Ahn DK |
Contemporary clinical trials |
32659437 |
Contemp Clin Trials |
2020 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/32659437 |
| Slice-based Learning: A Programming Model for Residual Learning in Critical Data Slices. |
Chen VS, Wu S, Weng Z, Ratner A, Ré C |
Advances in neural information processing systems |
31871391 |
Adv Neural Inf Process Syst |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/31871391 |
| On the Downstream Performance of Compressed Word Embeddings. |
May A, Zhang J, Dao T, Ré C |
Advances in neural information processing systems |
31885428 |
Adv Neural Inf Process Syst |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/31885428 |
| A Kernel Theory of Modern Data Augmentation. |
Dao T, Gu A, Ratner AJ, Smith V, De Sa C, Ré C |
Proceedings of machine learning research |
31777848 |
Proc Mach Learn Res |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31777848 |
| Deep neural networks enable quantitative movement analysis using single-camera videos. |
Kidziński Ł, Yang B, Hicks JL, Rajagopal A, Delp SL, Schwartz MH |
Nature communications |
32792511 |
Nat Commun |
2020 Aug 13 |
https://www.ncbi.nlm.nih.gov/pubmed/32792511 |
| A neural network to predict the knee adduction moment in patients with osteoarthritis using anatomical landmarks obtainable from 2D video analysis. |
Boswell MA, Uhlrich SD, Kidziński Ł, Thomas K, Kolesar JA, Gold GE, Beaupre GS, Delp SL |
Osteoarthritis and cartilage |
33422707 |
Osteoarthritis Cartilage |
2021 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/33422707 |
| Credible practice of modeling and simulation in healthcare: ten rules from a multidisciplinary perspective. |
Erdemir A, Mulugeta L, Ku JP, Drach A, Horner M, Morrison TM, Peng GCY, Vadigepalli R, Lytton WW, Myers JG Jr |
Journal of translational medicine |
32993675 |
J Transl Med |
2020 Sep 29 |
https://www.ncbi.nlm.nih.gov/pubmed/32993675 |
| Deep reinforcement learning for modeling human locomotion control in neuromechanical simulation. |
Song S, Kidziński Ł, Peng XB, Ong C, Hicks J, Levine S, Atkeson CG, Delp SL |
Journal of neuroengineering and rehabilitation |
34399772 |
J Neuroeng Rehabil |
2021 Aug 16 |
https://www.ncbi.nlm.nih.gov/pubmed/34399772 |
| Mobile Health: making the leap to research and clinics. |
Ku JP, Sim I |
NPJ digital medicine |
33990671 |
NPJ Digit Med |
2021 May 14 |
https://www.ncbi.nlm.nih.gov/pubmed/33990671 |
| Serving up FLAN. a food literacy and nutrition intervention to fend off food insecurity. |
Royer MF, Hauser ME, Zamora AN, Campero MI, Garcia D, Gabaray M, Sheats JL, King AC |
BMC nutrition |
39044224 |
BMC Nutr |
2024 Jul 23 |
https://www.ncbi.nlm.nih.gov/pubmed/39044224 |
| Evaluating semi-supervision methods for medical image segmentation: applications in cardiac magnetic resonance imaging. |
Hooper SM, Wu S, Davies RH, Bhuva A, Schelbert EB, Moon JC, Kellman P, Xue H, Langlotz C, Ré C |
Journal of medical imaging (Bellingham, Wash.) |
37009059 |
J Med Imaging (Bellingham) |
2023 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/37009059 |
| Generalized Matrix Factorization: efficient algorithms for fitting generalized linear latent variable models to large data arrays. |
Kidziński Ł, Hui FKC, Warton DI, Hastie T |
Journal of machine learning research : JMLR |
37102181 |
J Mach Learn Res |
2022 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/37102181 |
| Sleep Duration is Associated with Fruit and Vegetable Intake in Lower Income Adults from the San Francisco Bay Area: A Cross-Sectional Analysis. |
Zamora AN, Patel ML, Campero MI, Garcia DM, Portillo SA, King AC |
Nutrients |
40077717 |
Nutrients |
2025 Feb 28 |
https://www.ncbi.nlm.nih.gov/pubmed/40077717 |
| Control Engineering Methods for the Design of Robust Behavioral Treatments. |
Bekiroglu K, Lagoa C, Murphy SA, Lanza ST |
IEEE transactions on control systems technology : a publication of the IEEE Control Systems Society |
28344431 |
IEEE Trans Control Syst Technol |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/28344431 |
| Domain Adaptation Methods for Improving Lab-to-field Generalization of Cocaine Detection using Wearable ECG. |
Natarajan A, Angarita G, Gaiser E, Malison R, Ganesan D, Marlin BM |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
28090605 |
Proc ACM Int Conf Ubiquitous Comput |
2016 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/28090605 |
| Effect of Physical Activity on Self-Reported Disability in Older Adults: Results from the LIFE Study. |
Manini TM, Beavers DP, Pahor M, Guralnik JM, Spring B, Church TS, King AC, Folta SC, Glynn NW, Marsh AP, Gill TM, LIFE study investigators |
Journal of the American Geriatrics Society |
28168689 |
J Am Geriatr Soc |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/28168689 |
| Big Data Analytics with Datalog Queries on Spark. |
Shkapsky A, Yang M, Interlandi M, Chiu H, Condie T, Zaniolo C |
Proceedings. ACM-SIGMOD International Conference on Management of Data |
28626296 |
Proc ACM SIGMOD Int Conf Manag Data |
2016 Jun-Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28626296 |
| Programming and Runtime Support to Blaze FPGA Accelerator Deployment at Datacenter Scale. |
Huang M, Wu D, Yu CH, Fang Z, Interlandi M, Condie T, Cong J |
Proceedings of the ... ACM Symposium on Cloud Computing [electronic resource] : SOCC ... ... SoCC (Conference) |
28317049 |
Proc ACM Symp Cloud Comput |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28317049 |
| VISAGE: Interactive Visual Graph Querying. |
Pienta R, Navathe S, Tamersoy A, Tong H, Endert A, Chau DH |
AVI : proceedings of the Workshop on Advanced Visual Interfaces. AVI (Conference) |
28553670 |
AVI |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28553670 |
| Sleep disordered breathing and post-discharge mortality in patients with acute heart failure. |
Khayat R, Jarjoura D, Porter K, Sow A, Wannemacher J, Dohar R, Pleister A, Abraham WT |
European heart journal |
25636743 |
Eur Heart J |
2015 Jun 14 |
https://www.ncbi.nlm.nih.gov/pubmed/25636743 |
| The effect of reverse remodeling on long-term survival in mildly symptomatic patients with heart failure receiving cardiac resynchronization therapy: results of the REVERSE study. |
Gold MR, Daubert C, Abraham WT, Ghio S, St John Sutton M, Hudnall JH, Cerkvenik J, Linde C |
Heart rhythm |
25460860 |
Heart Rhythm |
2015 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/25460860 |
| A Comparison of Methamphetamine Users to a Matched NHANES Cohort: Propensity Score Analyses for Oral Health Care and Dental Service Need. |
Murphy DA, Harrell L, Fintzy R, Belin TR, Gutierrez A, Vitero SJ, Shetty V |
The journal of behavioral health services & research |
25398257 |
J Behav Health Serv Res |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/25398257 |
| Healthy lifestyle change and subclinical atherosclerosis in young adults: Coronary Artery Risk Development in Young Adults (CARDIA) study. |
Spring B, Moller AC, Colangelo LA, Siddique J, Roehrig M, Daviglus ML, Polak JF, Reis JP, Sidney S, Liu K |
Circulation |
24982115 |
Circulation |
2014 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/24982115 |
| A latent class analysis of cancer risk behaviors among U.S. college students. |
Kang J, Ciecierski CC, Malin EL, Carroll AJ, Gidea M, Craft LL, Spring B, Hitsman B |
Preventive medicine |
24704131 |
Prev Med |
2014 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/24704131 |
| A Pilot Randomized Trial of Text-Messaging for Symptom Awareness and Diabetes Knowledge in Adolescents With Type 1 Diabetes. |
Han Y, Faulkner MS, Fritz H, Fadoju D, Muir A, Abowd GD, Head L, Arriaga RI |
Journal of pediatric nursing |
25720675 |
J Pediatr Nurs |
2015 Nov-Dec |
https://www.ncbi.nlm.nih.gov/pubmed/25720675 |
| Inferring Meal Eating Activities in Real World Settings from Ambient Sounds: A Feasibility Study. |
Thomaz E, Zhang C, Essa I, Abowd GD |
IUI. International Conference on Intelligent User Interfaces |
25859566 |
IUI |
2015 Mar-Apr |
https://www.ncbi.nlm.nih.gov/pubmed/25859566 |
| Estimating Drivers' Stress from GPS Traces. |
Vhaduri S, Ali A, Sharmin M, Hovsepian K, Kumar S |
AutomotiveUI : Proceedings of the ... International Conference on Automotive User Interfaces and Interactive Vehicular Applications |
25866847 |
AutomotiveUI |
2014 Sep 17 |
https://www.ncbi.nlm.nih.gov/pubmed/25866847 |
| Association of BNP and Troponin Levels with Outcome among Cardiac Resynchronization Therapy Recipients. |
Shalaby AA, Abraham WT, Fonarow GC, Bersohn MM, Gorcsan J 3rd, Lee LY, Halilovic J, Saba S, Maisel A, Singh JP, Sonel A, Kadish A |
Pacing and clinical electrophysiology : PACE |
25677851 |
Pacing Clin Electrophysiol |
2015 May |
https://www.ncbi.nlm.nih.gov/pubmed/25677851 |
| Assessing the Availability of Users to Engage in Just-in-Time Intervention in the Natural Environment. |
Sarker H, Sharmin M, Ali AA, Rahman MM, Bari R, Hossain SM, Kumar S |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
25798455 |
Proc ACM Int Conf Ubiquitous Comput |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/25798455 |
| Automated-immunosensor with centrifugal fluid valves for salivary cortisol measurement. |
Yamaguchi M, Katagata H, Tezuka Y, Niwa D, Shetty V |
Sensing and Bio-Sensing Research |
26543818 |
Sens Biosensing Res |
2014 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26543818 |
| Titian: Data Provenance Support in Spark. |
Interlandi M, Shah K, Tetali SD, Gulzar MA, Yoo S, Kim M, Millstein T, Condie T |
Proceedings of the VLDB Endowment. International Conference on Very Large Data Bases |
26726305 |
Proceedings VLDB Endowment |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26726305 |
| Randomised trials for the Fitbit generation. |
Dempsey W, Liao P, Klasnja P, Nahum-Shani I, Murphy SA |
Significance (Oxford, England) |
26807137 |
Signif (Oxf) |
2015 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26807137 |
| CAreDroid: Adaptation Framework for Android Context-Aware Applications. |
Elmalaki S, Wanner L, Srivastava M |
Proceedings of the ... annual International Conference on Mobile Computing and Networking. International Conference on Mobile Computing and Networking |
26834512 |
Proc Annu Int Conf Mob Comput Netw |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26834512 |
| Actigraphy features for predicting mobility disability in older adults. |
Kheirkhahan M, Tudor-Locke C, Axtell R, Buman MP, Fielding RA, Glynn NW, Guralnik JM, King AC, White DK, Miller ME, Siddique J, Brubaker P, Rejeski WJ, Ranshous S, Pahor M, Ranka S, Manini TM |
Physiological measurement |
27653966 |
Physiol Meas |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/27653966 |
| BigDebug: Debugging Primitives for Interactive Big Data Processing in Spark. |
Gulzar MA, Interlandi M, Yoo S, Tetali SD, Condie T, Millstein T, Kim M |
Proceedings - International Conference on Software Engineering. International Conference on Software Engineering |
27390389 |
Proc Int Conf Softw Eng |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/27390389 |
| Left atrial decompression through unidirectional left-to-right interatrial shunt for the treatment of left heart failure: first-in-man experience with the V-Wave device. |
Amat-Santos IJ, Bergeron S, Bernier M, Allende R, Barbosa Ribeiro H, Urena M, Pibarot P, Verheye S, Keren G, Yaacoby M, Nitzan Y, Abraham WT, Rodés-Cabau J |
EuroIntervention : journal of EuroPCR in collaboration with the Working Group on Interventional Cardiology of the European Society of Cardiology |
24832489 |
EuroIntervention |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/24832489 |
| EarBit: Using Wearable Sensors to Detect Eating Episodes in Unconstrained Environments. |
Bedri A, Li R, Haynes M, Kosaraju RP, Grover I, Prioleau T, Beh MY, Goel M, Starner T, Abowd G |
Proceedings of the ACM on interactive, mobile, wearable and ubiquitous technologies |
30135957 |
Proc ACM Interact Mob Wearable Ubiquitous Technol |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/30135957 |
| Learning Time Series Detection Models from Temporally Imprecise Labels. |
Adams RJ, Marlin BM |
Proceedings of machine learning research |
30465043 |
Proc Mach Learn Res |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30465043 |
| EDGE EXCHANGEABLE MODELS FOR INTERACTION NETWORKS. |
Crane H, Dempsey W |
Journal of the American Statistical Association |
30467447 |
J Am Stat Assoc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30467447 |
| Using novel mobile sensors to assess stress and smoking lapse. |
Nakajima M, Lemieux AM, Fiecas M, Chatterjee S, Sarker H, Saleheen N, Ertin E, Kumar S, al'Absi M |
International journal of psychophysiology : official journal of the International Organization of Psychophysiology |
33189770 |
Int J Psychophysiol |
2020 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/33189770 |
| Off-Policy Estimation of Long-Term Average Outcomes with Applications to Mobile Health. |
Liao P, Klasnja P, Murphy S |
Journal of the American Statistical Association |
33814653 |
J Am Stat Assoc |
2021 |
https://www.ncbi.nlm.nih.gov/pubmed/33814653 |
| Engagement With a Behavior Change App for Alcohol Reduction: Data Visualization for Longitudinal Observational Study. |
Bell L, Garnett C, Qian T, Perski O, Williamson E, Potts HW |
Journal of medical Internet research |
33306026 |
J Med Internet Res |
2020 Dec 11 |
https://www.ncbi.nlm.nih.gov/pubmed/33306026 |
| Just-in-Time but Not Too Much: Determining Treatment Timing in Mobile Health. |
Liao P, Dempsey W, Sarker H, Hossain SM, Al'absi M, Klasnja P, Murphy S |
Proceedings of the ACM on interactive, mobile, wearable and ubiquitous technologies |
30801052 |
Proc ACM Interact Mob Wearable Ubiquitous Technol |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30801052 |
| Chronodes: Interactive Multifocus Exploration of Event Sequences. |
Polack PJ Jr, Chen ST, Kahng M, DE Barbaro K, Basole R, Sharmin M, Chau DH |
ACM transactions on interactive intelligent systems |
29515937 |
ACM Trans Interact Intell Syst |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29515937 |
| A Practical Approach for Recognizing Eating Moments with Wrist-Mounted Inertial Sensing. |
Thomaz E, Essa I, Abowd GD |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
29520397 |
Proc ACM Int Conf Ubiquitous Comput |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/29520397 |
| Learning Tree-Structured Detection Cascades for Heterogeneous Networks of Embedded Devices. |
Dadkhahi H, Marlin BM |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
29333328 |
KDD |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29333328 |
| mHealth Visual Discovery Dashboard. |
Fang D, Hohman F, Polack P, Sarker H, Kahng M, Sharmin M, al'Absi M, Chau DH |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
29354812 |
Proc ACM Int Conf Ubiquitous Comput |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/29354812 |
| Exploring Symmetric and Asymmetric Bimanual Eating Detection with Inertial Sensors on the Wrist. |
Thomaz E, Bedri A, Prioleau T, Essa I, Abowd GD |
DigitalBiomarkers'17 : proceedings of the 1st Workshop on Digital Biomarkers : June 23, 2017, Niagara Falls, NY, USA. Workshop on Digital Biomarkers (1st : 2017 : Niagara Falls, N.Y.) |
29505038 |
DigitalBiomarkers 17 (2017) |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29505038 |
| Exchangeable Markov survival processes and weak continuity of predictive distributions. |
Dempsey W, McCullagh P |
Electronic journal of statistics |
30555616 |
Electron J Stat |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/30555616 |
| A Robust Functional EM Algorithm for Incomplete Panel Count Data. |
Moreno A, Wu Z, Yap J, Lam C, Wetter DW, Nahum-Shani I, Dempsey W, Rehg JM |
Advances in neural information processing systems |
34103881 |
Adv Neural Inf Process Syst |
2020 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/34103881 |
| ReVibe: A Context-assisted Evening Recall Approach to Improve Self-report Adherence. |
Rabbi M, Li K, Yan HY, Hall K, Klasnja P, Murphy S |
Proceedings of the ACM on interactive, mobile, wearable and ubiquitous technologies |
34164595 |
Proc ACM Interact Mob Wearable Ubiquitous Technol |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/34164595 |
| Psychophysiological responses to stress following alcohol intake in social drinkers who are at risk of hazardous drinking. |
Nakajima M, Kumar S, Wittmers L, Scott MS, al'Absi M |
Biological psychology |
23313460 |
Biol Psychol |
2013 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/23313460 |
| Stratifying patients at the risk of heart failure hospitalization using existing device diagnostic thresholds. |
Sharma V, Rathman LD, Small RS, Whellan DJ, Koehler J, Warman E, Abraham WT |
Heart & lung : the journal of critical care |
25543319 |
Heart Lung |
2015 Mar-Apr |
https://www.ncbi.nlm.nih.gov/pubmed/25543319 |
| Mechanisms and clinical consequences of untreated central sleep apnea in heart failure. |
Costanzo MR, Khayat R, Ponikowski P, Augostini R, Stellbrink C, Mianulli M, Abraham WT |
Journal of the American College of Cardiology |
25572513 |
J Am Coll Cardiol |
2015 Jan 6 |
https://www.ncbi.nlm.nih.gov/pubmed/25572513 |
| MAGE: Matching Approximate Patterns in Richly-Attributed Graphs. |
Pienta R, Tamersoy A, Tong H, Chau DH |
Proceedings : ... IEEE International Conference on Big Data. IEEE International Conference on Big Data |
25859565 |
Proc IEEE Int Conf Big Data |
2014 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/25859565 |
| Introduction to SMART designs for the development of adaptive interventions: with application to weight loss research. |
Almirall D, Nahum-Shani I, Sherwood NE, Murphy SA |
Translational behavioral medicine |
25264466 |
Transl Behav Med |
2014 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/25264466 |
| Social embeddedness in an online weight management programme is linked to greater weight loss. |
Poncela-Casasnovas J, Spring B, McClary D, Moller AC, Mukogo R, Pellegrini CA, Coons MJ, Davidson M, Mukherjee S, Nunes Amaral LA |
Journal of the Royal Society, Interface |
25631561 |
J R Soc Interface |
2015 Mar 6 |
https://www.ncbi.nlm.nih.gov/pubmed/25631561 |
| D-ribose aids heart failure patients with preserved ejection fraction and diastolic dysfunction: a pilot study. |
Bayram M, St Cyr JA, Abraham WT |
Therapeutic advances in cardiovascular disease |
25701016 |
Ther Adv Cardiovasc Dis |
2015 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/25701016 |
| Dynamic Treatment Regimes. |
Chakraborty B, Murphy SA |
Annual review of statistics and its application |
25401119 |
Annu Rev Stat Appl |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/25401119 |
| A randomized controlled trial to evaluate the safety and efficacy of cardiac contractility modulation in patients with moderately reduced left ventricular ejection fraction and a narrow QRS duration: study rationale and design. |
Abraham WT, Lindenfeld J, Reddy VY, Hasenfuss G, Kuck KH, Boscardin J, Gibbons R, Burkhoff D, FIX-HF-5C Investigators and Coordinators |
Journal of cardiac failure |
25285748 |
J Card Fail |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25285748 |
| Visualization of Time-Series Sensor Data to Inform the Design of Just-In-Time Adaptive Stress Interventions. |
Sharmin M, Raij A, Epstien D, Nahum-Shani I, Beck JG, Vhaduri S, Preston K, Kumar S |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
26539566 |
Proc ACM Int Conf Ubiquitous Comput |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26539566 |
| Center of excellence for mobile sensor data-to-knowledge (MD2K). |
Kumar S, Abowd GD, Abraham WT, al'Absi M, Beck JG, Chau DH, Condie T, Conroy DE, Ertin E, Estrin D, Ganesan D, Lam C, Marlin B, Marsh CB, Murphy SA, Nahum-Shani I, Patrick K, Rehg JM, Sharmin M, Shetty V, Sim I, Spring B, Srivastava M, Wetter DW |
Journal of the American Medical Informatics Association : JAMIA |
26555017 |
J Am Med Inform Assoc |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26555017 |
| Sample size calculations for micro-randomized trials in mHealth. |
Liao P, Klasnja P, Tewari A, Murphy SA |
Statistics in medicine |
26707831 |
Stat Med |
2016 May 30 |
https://www.ncbi.nlm.nih.gov/pubmed/26707831 |
| Building health behavior models to guide the development of just-in-time adaptive interventions: A pragmatic framework. |
Nahum-Shani I, Hekler EB, Spruijt-Metz D |
Health psychology : official journal of the Division of Health Psychology, American Psychological Association |
26651462 |
Health Psychol |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/26651462 |
| Microrandomized trials: An experimental design for developing just-in-time adaptive interventions. |
Klasnja P, Hekler EB, Shiffman S, Boruvka A, Almirall D, Tewari A, Murphy SA |
Health psychology : official journal of the Division of Health Psychology, American Psychological Association |
26651463 |
Health Psychol |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/26651463 |
| Smartphone applications to support weight loss: current perspectives. |
Pellegrini CA, Pfammatter AF, Conroy DE, Spring B |
Advanced health care technologies |
26236766 |
Adv Health Care Technol |
2015 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/26236766 |
| Optimization of remotely delivered intensive lifestyle treatment for obesity using the Multiphase Optimization Strategy: Opt-IN study protocol. |
Pellegrini CA, Hoffman SA, Collins LM, Spring B |
Contemporary clinical trials |
24846621 |
Contemp Clin Trials |
2014 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/24846621 |
| Efficient Learning of Continuous-Time Hidden Markov Models for Disease Progression. |
Liu YY, Li S, Li F, Song L, Rehg JM |
Advances in neural information processing systems |
27019571 |
Adv Neural Inf Process Syst |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/27019571 |
| CIDER: Enabling Robustness-Power Tradeoffs on a Computational Eyeglass. |
Mayberry A, Tun Y, Hu P, Smith-Freedman D, Ganesan D, Marlin B, Salthouse C |
Proceedings of the ... annual International Conference on Mobile Computing and Networking. International Conference on Mobile Computing and Networking |
27042165 |
Proc Annu Int Conf Mob Comput Netw |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/27042165 |
| From Pressure to Path: Barometer-based Vehicle Tracking. |
Ho BJ, Martin P, Swaminathan P, Srivastava M |
BuildSys'15 : proceedings of the 2nd ACM International Conference on Embedded Systems for Energy-Efficient Buildings : November 4-5, 2015, Seoul, South Korea. ACM Conference on Embedded Systems for Energy-Efficient Buildings (2nd : 2015... |
29503981 |
BuildSys15 (2015) |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/29503981 |
| iLid: Low-power Sensing of Fatigue and Drowsiness Measures on a Computational Eyeglass. |
Rostaminia S, Mayberry A, Ganesan D, Marlin B, Gummeson J |
Proceedings of the ACM on interactive, mobile, wearable and ubiquitous technologies |
29417956 |
Proc ACM Interact Mob Wearable Ubiquitous Technol |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29417956 |
| ewrapper: Operationalizing engagement strategies in mHealth. |
Wagner B 3rd, Liu E, Shaw SD, Iakovlev G, Zhou L, Harrington C, Abowd G, Yoon C, Kumar S, Murphy S, Spring B, Nahum-Shani I |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
29362728 |
Proc ACM Int Conf Ubiquitous Comput |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/29362728 |
| SeleCon: Scalable IoT Device Selection and Control Using Hand Gestures. |
Alanwar A, Alzantot M, Ho BJ, Martin P, Srivastava M |
IoTDI 2017 : 2017 IEEE/ACM Second International Conference on Internet-of-Things Design and Implementation : proceedings : 18-20 April 2017, Pittsburgh, Pennsylvania, USA. IoTDI (Conference) (2nd : 2017 : Pittsburgh, Pa.) |
29683151 |
IoTDI 2017 (2017) |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29683151 |
| Developing Optimized Adaptive Interventions in Education. |
Almirall D, Kasari C, McCaffrey DF, Nahum-Shani I |
Journal of research on educational effectiveness |
29552270 |
J Res Educ Eff |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29552270 |
| mCerebrum: A Mobile Sensing Software Platform for Development and Validation of Digital Biomarkers and Interventions. |
Hossain SM, Hnat T, Saleheen N, Nasrin NJ, Noor J, Ho BJ, Condie T, Srivastava M, Kumar S |
Proceedings of the ... International Conference on Embedded Networked Sensor Systems. International Conference on Embedded Networked Sensor Systems |
30288504 |
Proc Int Conf Embed Netw Sens Syst |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30288504 |
| Practical Considerations for Data Collection and Management in Mobile Health Micro-randomized Trials. |
Seewald NJ, Smith SN, Lee AJ, Klasnja P, Murphy SA |
Statistics in biosciences |
31462937 |
Stat Biosci |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31462937 |
| Optimizing Interactive Development of Data-Intensive Applications. |
Interlandi M, Tetali SD, Gulzar MA, Noor J, Condie T, Kim M, Millstein T |
Proceedings of the ... ACM Symposium on Cloud Computing [electronic resource] : SOCC ... ... SoCC (Conference) |
28405637 |
Proc ACM Symp Cloud Comput |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28405637 |
| Laissez-Faire : Fully Asymmetric Backscatter Communication. |
Hu P, Zhang P, Ganesan D |
Proceedings of ACM SIGCOMM ... Conference. ACM SIGCOMM Conference |
28286885 |
Proc ACM SIGCOMM Conf |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28286885 |
| mSieve: Differential Behavioral Privacy in Time Series of Mobile Sensor Data. |
Saleheen N, Chakraborty S, Ali N, Mahbubur Rahman M, Hossain SM, Bari R, Buder E, Srivastava M, Kumar S |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
28058408 |
Proc ACM Int Conf Ubiquitous Comput |
2016 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/28058408 |
| Racial Differences in Maintaining Optimal Health Behaviors Into Middle Age. |
Booth JN 3rd, Allen NB, Calhoun D, Carson AP, Deng L, Goff DC Jr, Redden DT, Reis JP, Shimbo D, Shikany JM, Sidney S, Spring B, Lewis CE, Muntner P |
American journal of preventive medicine |
30777156 |
Am J Prev Med |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30777156 |
| rConverse: Moment by Moment Conversation Detection Using a Mobile Respiration Sensor. |
Bari R, Adams RJ, Rahman M, Parsons MB, Buder EH, Kumar S |
Proceedings of the ACM on interactive, mobile, wearable and ubiquitous technologies |
30417165 |
Proc ACM Interact Mob Wearable Ubiquitous Technol |
2018 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30417165 |
| Sense2Stop: A micro-randomized trial using wearable sensors to optimize a just-in-time-adaptive stress management intervention for smoking relapse prevention. |
Battalio SL, Conroy DE, Dempsey W, Liao P, Menictas M, Murphy S, Nahum-Shani I, Qian T, Kumar S, Spring B |
Contemporary clinical trials |
34375749 |
Contemp Clin Trials |
2021 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/34375749 |
| IntelligentPooling: Practical Thompson Sampling for mHealth. |
Tomkins S, Liao P, Klasnja P, Murphy S |
Machine learning |
34621105 |
Mach Learn |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/34621105 |
| Dynamic models of stress-smoking responses based on high-frequency sensor data. |
Hojjatinia S, Daly ER, Hnat T, Hossain SM, Kumar S, Lagoa CM, Nahum-Shani I, Samiei SA, Spring B, Conroy DE |
NPJ digital medicine |
34815538 |
NPJ Digit Med |
2021 Nov 23 |
https://www.ncbi.nlm.nih.gov/pubmed/34815538 |
| Sleep Disruption Moderates the Daily Dynamics of Affect and Pain in Sickle Cell Disease. |
Ellis JD, Samiei S, Neupane S, DuPont C, McGill L, Chow P, Lanzkron S, Haythornthwaite J, Campbell CM, Kumar S, Finan PH |
The journal of pain |
38242332 |
J Pain |
2024 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/38242332 |
| Relationship between salivary cortisol and depression in adolescent survivors of a major natural disaster. |
Yonekura T, Takeda K, Shetty V, Yamaguchi M |
The journal of physiological sciences : JPS |
24744089 |
J Physiol Sci |
2014 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/24744089 |
| Are We There Yet? Feasibility of Continuous Stress Assessment via Wireless Physiological Sensors. |
Rahman M, Bari R, Ali AA, Sharmin M, Raij A, Hovsepian K, Hossain SM, Ertin E, Kennedy A, Epstein DH, Preston KL, Jobes M, Beck JG, Kedia S, Ward KD, al'Absi M, Kumar S |
ACM-BCB ... ... : the ... ACM Conference on Bioinformatics, Computational Biology and Biomedicine. ACM Conference on Bioinformatics, Computational Biology and Biomedicine |
25821861 |
ACM BCB |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/25821861 |
| Towards Scalable Graph Computation on Mobile Devices. |
Chen Y, Lin Z, Pienta R, Kahng M, Chau DH |
Proceedings : ... IEEE International Conference on Big Data. IEEE International Conference on Big Data |
25859564 |
Proc IEEE Int Conf Big Data |
2014 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/25859564 |
| Interactive Querying over Large Network Data: Scalability, Visualization, and Interaction Design. |
Pienta R, Tamersoy A, Tong H, Endert A, Chau DH |
IUI. International Conference on Intelligent User Interfaces |
25859567 |
IUI |
2015 Mar-Apr |
https://www.ncbi.nlm.nih.gov/pubmed/25859567 |
| Heart failure and respiratory hospitalizations are reduced in patients with heart failure and chronic obstructive pulmonary disease with the use of an implantable pulmonary artery pressure monitoring device. |
Krahnke JS, Abraham WT, Adamson PB, Bourge RC, Bauman J, Ginn G, Martinez FJ, Criner GJ, Champion Trial Study Group |
Journal of cardiac failure |
25541376 |
J Card Fail |
2015 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/25541376 |
| Prevalence of metabolic syndrome and its association with physical capacity, disability, and self-rated health in Lifestyle Interventions and Independence for Elders Study participants. |
Botoseneanu A, Ambrosius WT, Beavers DP, de Rekeneire N, Anton S, Church T, Folta SC, Goodpaster BH, King AC, Nicklas BJ, Spring B, Wang X, Gill TM, LIFE Study Groups |
Journal of the American Geriatrics Society |
25645664 |
J Am Geriatr Soc |
2015 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/25645664 |
| GLO-STIX: Graph-Level Operations for Specifying Techniques and Interactive eXploration. |
Stolper CD, Kahng M, Lin Z, Foerster F, Goel A, Stasko J, Chau DH |
IEEE transactions on visualization and computer graphics |
26005315 |
IEEE Trans Vis Comput Graph |
2014 Dec 31 |
https://www.ncbi.nlm.nih.gov/pubmed/26005315 |
| MMap: Fast Billion-Scale Graph Computation on a PC via Memory Mapping. |
Lin Z, Kahng M, Sabrin KM, Chau DH, Lee H, Kang U |
Proceedings : ... IEEE International Conference on Big Data. IEEE International Conference on Big Data |
25866846 |
Proc IEEE Int Conf Big Data |
2014 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/25866846 |
| Dynamic treatment regimes: technical challenges and applications. |
Laber EB, Lizotte DJ, Qian M, Pelham WE, Murphy SA |
Electronic journal of statistics |
25356091 |
Electron J Stat |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/25356091 |
| Design and protocol of a randomized multiple behavior change trial: Make Better Choices 2 (MBC2). |
Pellegrini CA, Steglitz J, Johnston W, Warnick J, Adams T, McFadden HG, Siddique J, Hedeker D, Spring B |
Contemporary clinical trials |
25625810 |
Contemp Clin Trials |
2015 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/25625810 |
| A multiple imputation strategy for sequential multiple assignment randomized trials. |
Shortreed SM, Laber E, Scott Stroup T, Pineau J, Murphy SA |
Statistics in medicine |
24919867 |
Stat Med |
2014 Oct 30 |
https://www.ncbi.nlm.nih.gov/pubmed/24919867 |
| RisQ: Recognizing Smoking Gestures with Inertial Sensors on a Wristband. |
Parate A, Chiu MC, Chadowitz C, Ganesan D, Kalogerakis E |
MobiSys ... : the ... International Conference on Mobile Systems, Applications and Services. International Conference on Mobile Systems, Applications, and Services |
26688835 |
MobiSys |
2014 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26688835 |
| Barriers and Negative Nudges: Exploring Challenges in Food Journaling. |
Cordeiro F, Epstein DA, Thomaz E, Bales E, Jagannathan AK, Abowd GD, Fogarty J |
Proceedings of the SIGCHI conference on human factors in computing systems. CHI Conference |
26894233 |
Proc SIGCHI Conf Hum Factor Comput Syst |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26894233 |
| iShadow: Design of a Wearable, Real-Time Mobile Gaze Tracker. |
Mayberry A, Hu P, Marlin B, Salthouse C, Ganesan D |
MobiSys ... : the ... International Conference on Mobile Systems, Applications and Services. International Conference on Mobile Systems, Applications, and Services |
26539565 |
MobiSys |
2014 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26539565 |
| Conditional Random Fields for Morphological Analysis of Wireless ECG Signals. |
Natarajan A, Gaiser E, Angarita G, Malison R, Ganesan D, Marlin B |
ACM-BCB ... ... : the ... ACM Conference on Bioinformatics, Computational Biology and Biomedicine. ACM Conference on Bioinformatics, Computational Biology and Biomedicine |
26726321 |
ACM BCB |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/26726321 |
| Gaze-enabled Egocentric Video Summarization via Constrained Submodular Maximization. |
Xut J, Mukherjee L, Li Y, Warner J, Rehg JM, Singht V |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
26973428 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2015 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26973428 |
| mCrave: Continuous Estimation of Craving During Smoking Cessation. |
Chatterjee S, Hovsepian K, Sarker H, Saleheen N, al'Absi M, Atluri G, Ertin E, Lam C, Lemieux A, Nakajima M, Spring B, Wetter DW, Kumar S |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
27990501 |
Proc ACM Int Conf Ubiquitous Comput |
2016 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/27990501 |
| Standardized Effect Sizes for Preventive Mobile Health Interventions in Micro-randomized Trials. |
Luers B, Klasnja P, Murphy S |
Prevention science : the official journal of the Society for Prevention Research |
29318443 |
Prev Sci |
2019 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/29318443 |
| Predicting Daily Activities From Egocentric Images Using Deep Learning. |
Castro D, Hickson S, Bettadapura V, Thomaz E, Abowd G, Christensen H, Essa I |
Proceedings. International Symposium on Wearable Computers |
29553145 |
Proc Int Symp Wearable Comput |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29553145 |
| Optimizing Digital Integrated Care via Micro-Randomized Trials. |
Walton A, Nahum-Shani I, Crosby L, Klasnja P, Murphy S |
Clinical pharmacology and therapeutics |
29604043 |
Clin Pharmacol Ther |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29604043 |
| Visual Analytics in Deep Learning: An Interrogative Survey for the Next Frontiers. |
Hohman FM, Kahng M, Pienta R, Chau DH |
IEEE transactions on visualization and computer graphics |
29993551 |
IEEE Trans Vis Comput Graph |
2018 Jun 4 |
https://www.ncbi.nlm.nih.gov/pubmed/29993551 |
| Toward Increasing Engagement in Substance Use Data Collection: Development of the Substance Abuse Research Assistant App and Protocol for a Microrandomized Trial Using Adolescents and Emerging Adults. |
Rabbi M, Philyaw Kotov M, Cunningham R, Bonar EE, Nahum-Shani I, Klasnja P, Walton M, Murphy S |
JMIR research protocols |
30021714 |
JMIR Res Protoc |
2018 Jul 18 |
https://www.ncbi.nlm.nih.gov/pubmed/30021714 |
| mTeeth: Identifying Brushing Teeth Surfaces Using Wrist-Worn Inertial Sensors. |
Akther S, Saleheen N, Saha M, Shetty V, Kumar S |
Proceedings of the ACM on interactive, mobile, wearable and ubiquitous technologies |
35309968 |
Proc ACM Interact Mob Wearable Ubiquitous Technol |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/35309968 |
| SmokingOpp: Detecting the Smoking 'Opportunity' Context Using Mobile Sensors. |
Chatterjee S, Moreno A, Lizotte SL, Akther S, Ertin E, Fagundes CP, Lam C, Rehg JM, Wan N, Wetter DW, Kumar S |
Proceedings of the ACM on interactive, mobile, wearable and ubiquitous technologies |
34651096 |
Proc ACM Interact Mob Wearable Ubiquitous Technol |
2020 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/34651096 |
| How Notifications Affect Engagement With a Behavior Change App: Results From a Micro-Randomized Trial. |
Bell L, Garnett C, Bao Y, Cheng Z, Qian T, Perski O, Potts HWW, Williamson E |
JMIR mHealth and uHealth |
37294612 |
JMIR Mhealth Uhealth |
2023 Jun 9 |
https://www.ncbi.nlm.nih.gov/pubmed/37294612 |
| iSurvive: An Interpretable, Event-time Prediction Model for mHealth. |
Dempsey WH, Moreno A, Scott CK, Dennis ML, Gustafson DH, Murphy SA, Rehg JM |
Proceedings of machine learning research |
30906932 |
Proc Mach Learn Res |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/30906932 |
| Artificial intelligence decision-making in mobile health. |
Menictas M, Rabbi M, Klasnja P, Murphy S |
The biochemist |
33828355 |
Biochem (Lond) |
2019 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/33828355 |
| Adding data provenance support to Apache Spark. |
Interlandi M, Ekmekji A, Shah K, Gulzar MA, Tetali SD, Kim M, Millstein T, Condie T |
The VLDB journal : very large data bases : a publication of the VLDB Endowment |
31007500 |
VLDB J |
2018 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/31007500 |
| Automated Debugging in Data-Intensive Scalable Computing. |
Gulzar MA, Interlandi M, Han X, Li M, Condie T, Kim M |
Proceedings of the ... ACM Symposium on Cloud Computing [electronic resource] : SOCC ... ... SoCC (Conference) |
31008457 |
Proc ACM Symp Cloud Comput |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/31008457 |
| Resting-state brain information flow predicts cognitive flexibility in humans. |
Chén OY, Cao H, Reinen JM, Qian T, Gou J, Phan H, De Vos M, Cannon TD |
Scientific reports |
30846746 |
Sci Rep |
2019 Mar 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30846746 |
| A Data Analysis Method for Using Longitudinal Binary Outcome Data from a SMART to Compare Adaptive Interventions. |
Dziak JJ, Yap JRT, Almirall D, McKay JR, Lynch KG, Nahum-Shani I |
Multivariate behavioral research |
30663401 |
Multivariate Behav Res |
2019 Sep-Oct |
https://www.ncbi.nlm.nih.gov/pubmed/30663401 |
| Assessing Time-Varying Causal Effect Moderation in Mobile Health. |
Boruvka A, Almirall D, Witkiewitz K, Murphy SA |
Journal of the American Statistical Association |
30467446 |
J Am Stat Assoc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30467446 |
| CIDER: Enhancing the Performance of Computational Eyeglasses. |
Mayberry A, Tun Y, Hu P, Smith-Freedman D, Marlin B, Salthouse C, Ganesan D |
Proceedings. Eye Tracking Research & Applications Symposium |
29629433 |
Proc Eye Track Res Appl Symp |
2016 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/29629433 |
| mORAL: An mHealth Model for Inferring Oral Hygiene Behaviors in-the-wild Using Wrist-worn Inertial Sensors. |
Akther S, Saleheen N, Samiei SA, Shetty V, Ertin E, Kumar S |
Proceedings of the ACM on interactive, mobile, wearable and ubiquitous technologies |
40144218 |
Proc ACM Interact Mob Wearable Ubiquitous Technol |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/40144218 |
| A group-mediated, home-based physical activity intervention for patients with peripheral artery disease: effects on social and psychological function. |
Rejeski WJ, Spring B, Domanchuk K, Tao H, Tian L, Zhao L, McDermott MM |
Journal of translational medicine |
24467875 |
J Transl Med |
2014 Jan 28 |
https://www.ncbi.nlm.nih.gov/pubmed/24467875 |
| Identifying Drug (Cocaine) Intake Events from Acute Physiological Response in the Presence of Free-living Physical Activity. |
Hossain SM, Ali AA, Rahman M, Ertin E, Epstein D, Kennedy A, Preston K, Umbricht A, Chen Y, Kumar S |
IPSN : [proceedings]. IPSN (Conference) |
25531010 |
IPSN |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/25531010 |
| Evaluation of an electronic health record-supported obesity management protocol implemented in a community health center: a cautionary note. |
Steglitz J, Edberg D, Sommers M, Talen MR, Thornton LK, Spring B |
Journal of the American Medical Informatics Association : JAMIA |
25665700 |
J Am Med Inform Assoc |
2015 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/25665700 |
| Continuous in-the-field measurement of heart rate: Correlates of drug use, craving, stress, and mood in polydrug users. |
Kennedy AP, Epstein DH, Jobes ML, Agage D, Tyburski M, Phillips KA, Ali AA, Bari R, Hossain SM, Hovsepian K, Rahman MM, Ertin E, Kumar S, Preston KL |
Drug and alcohol dependence |
25920802 |
Drug Alcohol Depend |
2015 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/25920802 |
| Designing adaptive intensive interventions using methods from engineering. |
Lagoa CM, Bekiroglu K, Lanza ST, Murphy SA |
Journal of consulting and clinical psychology |
25244394 |
J Consult Clin Psychol |
2014 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/25244394 |
| Comparative Effectiveness Research: A Roadmap for Physical Activity and Lifestyle. |
Jakicic JM, Sox H, Blair SN, Bensink M, Johnson WG, King AC, Lee IM, Nahum-Shani I, Sallis JF, Sallis RE, Craft L, Whitehead JR, Ainsworth BE |
Medicine and science in sports and exercise |
25426735 |
Med Sci Sports Exerc |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/25426735 |
| A SMART data analysis method for constructing adaptive treatment strategies for substance use disorders. |
Nahum-Shani I, Ertefaie A, Lu XL, Lynch KG, McKay JR, Oslin DW, Almirall D |
Addiction (Abingdon, England) |
28029718 |
Addiction |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/28029718 |
| Privacy and Security in Mobile Health: A Research Agenda. |
Kotz D, Gunter CA, Kumar S, Weiner JP |
Computer |
28344359 |
Computer (Long Beach Calif) |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28344359 |
| Characterizing Smoking and Drinking Abstinence from Social Media. |
Tamersoy A, De Choudhury M, Chau DH |
HT ... : the proceedings of the ... ACM Conference on Hypertext and Social Media. ACM Conference on Hypertext and Social Media |
26640831 |
HT ACM Conf Hypertext Soc Media |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26640831 |
| Delving into Egocentric Actions. |
Li Y, Ye Z, Rehg JM |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
26973427 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2015 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26973427 |
| REEF: Retainable Evaluator Execution Framework. |
Weimer M, Chen Y, Chun BG, Condie T, Curino C, Douglas C, Lee Y, Majestro T, Malkhi D, Matusevych S, Myers B, Narayanamurthy S, Ramakrishnan R, Rao S, Sears R, Sezgin B, Wang J |
Proceedings. ACM-SIGMOD International Conference on Management of Data |
26819493 |
Proc ACM SIGMOD Int Conf Manag Data |
2015 May-Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26819493 |
| cStress: Towards a Gold Standard for Continuous Stress Assessment in the Mobile Environment. |
Hovsepian K, al'Absi M, Ertin E, Kamarck T, Nakajima M, Kumar S |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
26543926 |
Proc ACM Int Conf Ubiquitous Comput |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26543926 |
| puffMarker: A Multi-Sensor Approach for Pinpointing the Timing of First Lapse in Smoking Cessation. |
Saleheen N, Ali AA, Hossain SM, Sarker H, Chatterjee S, Marlin B, Ertin E, al'Absi M, Kumar S |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
26543927 |
Proc ACM Int Conf Ubiquitous Comput |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26543927 |
| Emu: Engagement Modeling for User Studies. |
Ho BJ, Nikzad N, Balaji B, Srivastava M |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
29629432 |
Proc ACM Int Conf Ubiquitous Comput |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/29629432 |
| Survival models and health sequences. |
Dempsey W, McCullagh P |
Lifetime data analysis |
29502184 |
Lifetime Data Anal |
2018 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/29502184 |
| SARA: A Mobile App to Engage Users in Health Data Collection. |
Rabbi M, Philyaw-Kotov M, Lee J, Mansour A, Dent L, Wang X, Cunningham R, Bonar E, Nahum-Shani I, Klasnja P, Walton M, Murphy S |
Proceedings of the ... ACM International Conference on Ubiquitous Computing . UbiComp (Conference) |
29503985 |
Proc ACM Int Conf Ubiquitous Comput |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/29503985 |
| RSTensorFlow: GPU Enabled TensorFlow for Deep Learning on Commodity Android Devices. |
Alzantot M, Wang Y, Ren Z, Srivastava MB |
MobiSys ... : the ... International Conference on Mobile Systems, Applications and Services. International Conference on Mobile Systems, Applications, and Services |
29629431 |
MobiSys |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29629431 |
| Action Centered Contextual Bandits. |
Greenewald K, Tewari A, Klasnja P, Murphy S |
Advances in neural information processing systems |
29225449 |
Adv Neural Inf Process Syst |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29225449 |
| A Visual Analytics Approach to Understanding Care Process Variation and Conformance. |
Basole RC, Park H, Gupta M, Braunstein ML, Chau DH, Thompson M |
Proceedings of the 2015 Workshop on Visual Analytics in Healthcare |
29177250 |
Proc 2015 Workshop Vis Anal Healthc (2015) |
2015 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/29177250 |
| Just-in-Time Adaptive Interventions (JITAIs) in Mobile Health: Key Components and Design Principles for Ongoing Health Behavior Support. |
Nahum-Shani I, Smith SN, Spring BJ, Collins LM, Witkiewitz K, Tewari A, Murphy SA |
Annals of behavioral medicine : a publication of the Society of Behavioral Medicine |
27663578 |
Ann Behav Med |
2018 May 18 |
https://www.ncbi.nlm.nih.gov/pubmed/27663578 |
| Finding Significant Stress Episodes in a Discontinuous Time Series of Rapidly Varying Mobile Sensor Data. |
Sarker H, Tyburski M, Rahman MM, Hovsepian K, Sharmin M, Epstein DH, Preston KL, Furr-Holden CD, Milam A, Nahum-Shani I, al'Absi M, Kumar S |
Proceedings of the SIGCHI conference on human factors in computing systems. CHI Conference |
28058409 |
Proc SIGCHI Conf Hum Factor Comput Syst |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/28058409 |
| First Steps Into the Brave New Transdiscipline of Mobile Health. |
Spring B, Pfammatter A, Alshurafa N |
JAMA cardiology |
27973672 |
JAMA Cardiol |
2017 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27973672 |
| Hierarchical Span-Based Conditional Random Fields for Labeling and Segmenting Events in Wearable Sensor Data Streams. |
Adams RJ, Saleheen N, Thomaz E, Parate A, Kumar S, Marlin BM |
JMLR workshop and conference proceedings |
28090606 |
JMLR Workshop Conf Proc |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28090606 |
| Efficacy of Contextually Tailored Suggestions for Physical Activity: A Micro-randomized Optimization Trial of HeartSteps. |
Klasnja P, Smith S, Seewald NJ, Lee A, Hall K, Luers B, Hekler EB, Murphy SA |
Annals of behavioral medicine : a publication of the Society of Behavioral Medicine |
30192907 |
Ann Behav Med |
2019 May 3 |
https://www.ncbi.nlm.nih.gov/pubmed/30192907 |
| Feasibility and Acceptability of Mobile Phone-Based Auto-Personalized Physical Activity Recommendations for Chronic Pain Self-Management: Pilot Study on Adults. |
Rabbi M, Aung MS, Gay G, Reid MC, Choudhury T |
Journal of medical Internet research |
30368433 |
J Med Internet Res |
2018 Oct 26 |
https://www.ncbi.nlm.nih.gov/pubmed/30368433 |
| Center of Excellence for Mobile Sensor Data-to-Knowledge (MD2K). |
Kumar S, Abowd G, Abraham WT, al'Absi M, Chau DHP, Ertin E, Estrin D, Ganesan D, Hnat T, Hossain SM, Ives Z, Kerr J, Marlin BM, Murphy S, Rehg JM, Nahum-Shani I, Shetty V, Sim I, Spring B, Srivastava M, Wetter D |
IEEE pervasive computing |
29276451 |
IEEE Pervasive Comput |
2017 Apr-Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29276451 |
| ShapeShop: Towards Understanding Deep Learning Representations via Interactive Experimentation. |
Hohman F, Hodas N, Chau DH |
Extended abstracts on Human factors in computing systems. CHI Conference |
29354810 |
Ext Abstr Hum Factors Computing Syst |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/29354810 |
| Yum-Me: A Personalized Nutrient-Based Meal Recommender System. |
Yang L, Hsieh CK, Yang H, Pollak JP, Dell N, Belongie S, Cole C, Estrin D |
ACM transactions on information systems |
30464375 |
ACM Trans Inf Syst |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30464375 |
| Sample size considerations for comparing dynamic treatment regimens in a sequential multiple-assignment randomized trial with a continuous longitudinal outcome. |
Seewald NJ, Kidwell KM, Nahum-Shani I, Wu T, McKay JR, Almirall D |
Statistical methods in medical research |
31571526 |
Stat Methods Med Res |
2020 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31571526 |
| Notifications to Improve Engagement With an Alcohol Reduction App: Protocol for a Micro-Randomized Trial. |
Bell L, Garnett C, Qian T, Perski O, Potts HWW, Williamson E |
JMIR research protocols |
32763878 |
JMIR Res Protoc |
2020 Aug 7 |
https://www.ncbi.nlm.nih.gov/pubmed/32763878 |
| THE STRATIFIED MICRO-RANDOMIZED TRIAL DESIGN: SAMPLE SIZE CONSIDERATIONS FOR TESTING NESTED CAUSAL EFFECTS OF TIME-VARYING TREATMENTS. |
Dempsey W, Liao P, Kumar S, Murphy SA |
The annals of applied statistics |
33868539 |
Ann Appl Stat |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/33868539 |
| Personalized HeartSteps: A Reinforcement Learning Algorithm for Optimizing Physical Activity. |
Liao P, Greenewald K, Klasnja P, Murphy S |
Proceedings of the ACM on interactive, mobile, wearable and ubiquitous technologies |
34527853 |
Proc ACM Interact Mob Wearable Ubiquitous Technol |
2020 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/34527853 |
| Estimating time-varying causal excursion effect in mobile health with binary outcomes. |
Qian T, Yoo H, Klasnja P, Almirall D, Murphy SA |
Biometrika |
34629476 |
Biometrika |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/34629476 |
| The mobile assistance for regulating smoking (MARS) micro-randomized trial design protocol. |
Nahum-Shani I, Potter LN, Lam CY, Yap J, Moreno A, Stoffel R, Wu Z, Wan N, Dempsey W, Kumar S, Ertin E, Murphy SA, Rehg JM, Wetter DW |
Contemporary clinical trials |
34314855 |
Contemp Clin Trials |
2021 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/34314855 |
| The microrandomized trial for developing digital interventions: Experimental design and data analysis considerations. |
Qian T, Walton AE, Collins LM, Klasnja P, Lanza ST, Nahum-Shani I, Rabbi M, Russell MA, Walton MA, Yoo H, Murphy SA |
Psychological methods |
35025583 |
Psychol Methods |
2022 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/35025583 |
| Smoking Cessation Using Wearable Sensors: Protocol for a Microrandomized Trial. |
Hernandez LM, Wetter DW, Kumar S, Sutton SK, Vinci C |
JMIR research protocols |
33625366 |
JMIR Res Protoc |
2021 Feb 24 |
https://www.ncbi.nlm.nih.gov/pubmed/33625366 |
| Linear mixed models with endogenous covariates: modeling sequential treatment effects with application to a mobile health study. |
Qian T, Klasnja P, Murphy SA |
Statistical science : a review journal of the Institute of Mathematical Statistics |
33132496 |
Stat Sci |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/33132496 |
| Automated Detection of Stressful Conversations Using Wearable Physiological and Inertial Sensors. |
Bari R, Rahman MM, Saleheen N, Parsons MB, Buder EH, Kumar S |
Proceedings of the ACM on interactive, mobile, wearable and ubiquitous technologies |
34099995 |
Proc ACM Interact Mob Wearable Ubiquitous Technol |
2020 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/34099995 |
| In the Eye of the Beholder: Gaze and Actions in First Person Video. |
Li Y, Liu M, Rehg JM |
IEEE transactions on pattern analysis and machine intelligence |
33449877 |
IEEE Trans Pattern Anal Mach Intell |
2023 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/33449877 |
| A Just-In-Time Adaptive intervention (JITAI) for smoking cessation: Feasibility and acceptability findings. |
Yang MJ, Sutton SK, Hernandez LM, Jones SR, Wetter DW, Kumar S, Vinci C |
Addictive behaviors |
36037610 |
Addict Behav |
2023 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/36037610 |
| Penalized least squares regression methods and applications to neuroimaging. |
Bunea F, She Y, Ombao H, Gongvatana A, Devlin K, Cohen R |
NeuroImage |
21167288 |
Neuroimage |
2011 Apr 15 |
https://www.ncbi.nlm.nih.gov/pubmed/21167288 |
| Correcting for cell-type heterogeneity in DNA methylation: a comprehensive evaluation. |
Rahmani E, Zaitlen N, Baran Y, Eng C, Hu D, Galanter J, Oh S, Burchard EG, Eskin E, Zou J, Halperin E |
Nature methods |
28245214 |
Nat Methods |
2017 Feb 28 |
https://www.ncbi.nlm.nih.gov/pubmed/28245214 |
| Mapping 22q11.2 Gene Dosage Effects on Brain Morphometry. |
Lin A, Ching CRK, Vajdi A, Sun D, Jonas RK, Jalbrzikowski M, Kushan-Wells L, Pacheco Hansen L, Krikorian E, Gutman B, Dokoru D, Helleman G, Thompson PM, Bearden CE |
The Journal of neuroscience : the official journal of the Society for Neuroscience |
28536274 |
J Neurosci |
2017 Jun 28 |
https://www.ncbi.nlm.nih.gov/pubmed/28536274 |
| MORPHOMETRIC ANALYSIS OF HIPPOCAMPUS AND LATERAL VENTRICLE REVEALS REGIONAL DIFFERENCE BETWEEN COGNITIVELY STABLE AND DECLINING PERSONS. |
Zhang W, Shi J, Stonnington C, Bauer RJ 3rd, Gutman BA, Chen K, Thompson PM, Reiman EM, Caselli RJ, Wang Y |
Proceedings. IEEE International Symposium on Biomedical Imaging |
27499828 |
Proc IEEE Int Symp Biomed Imaging |
2016 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/27499828 |
| Imputing Phenotypes for Genome-wide Association Studies. |
Hormozdiari F, Kang EY, Bilow M, Ben-David E, Vulpe C, McLachlan S, Lusis AJ, Han B, Eskin E |
American journal of human genetics |
27292110 |
Am J Hum Genet |
2016 Jul 7 |
https://www.ncbi.nlm.nih.gov/pubmed/27292110 |
| Using genomic annotations increases statistical power to detect eGenes. |
Duong D, Zou J, Hormozdiari F, Sul JH, Ernst J, Han B, Eskin E |
Bioinformatics (Oxford, England) |
27307612 |
Bioinformatics |
2016 Jun 15 |
https://www.ncbi.nlm.nih.gov/pubmed/27307612 |
| Diffusion-weighted imaging uncovers likely sources of processing-speed deficits in schizophrenia. |
Kochunov P, Rowland LM, Fieremans E, Veraart J, Jahanshad N, Eskandar G, Du X, Muellerklein F, Savransky A, Shukla D, Sampath H, Thompson PM, Hong LE |
Proceedings of the National Academy of Sciences of the United States of America |
27834215 |
Proc Natl Acad Sci U S A |
2016 Nov 22 |
https://www.ncbi.nlm.nih.gov/pubmed/27834215 |
| Simultaneous Modeling of Disease Status and Clinical Phenotypes To Increase Power in Genome-Wide Association Studies. |
Bilow M, Crespo F, Pan Z, Eskin E, Eyheramendy S |
Genetics |
28132020 |
Genetics |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28132020 |
| Subcortical brain structure and suicidal behaviour in major depressive disorder: a meta-analysis from the ENIGMA-MDD working group. |
Rentería ME, Schmaal L, Hibar DP, Couvy-Duchesne B, Strike LT, Mills NT, de Zubicaray GI, McMahon KL, Medland SE, Gillespie NA, Hatton SN, Lagopoulos J, Veltman DJ, van der Wee N, van Erp TGM, Wittfeld K, Grabe HJ, Block A, Hegenscheid K, Völzke H, Veer IM, Walter H, Schnell K, Schramm E, Normann C, Schoepf D, Konrad C, Zurowski B, Godlewska BR, Cowen PJ, Penninx BWJH, Jahanshad N, Thompson PM, Wright MJ, Martin NG, Christensen H, Hickie IB |
Translational psychiatry |
28463239 |
Transl Psychiatry |
2017 May 2 |
https://www.ncbi.nlm.nih.gov/pubmed/28463239 |
| Anxiety modulates the relation between attention-deficit/hyperactivity disorder severity and working memory-related brain activity. |
van der Meer D, Hoekstra PJ, van Rooij D, Winkler AM, van Ewijk H, Heslenfeld DJ, Oosterlaan J, Faraone SV, Franke B, Buitelaar JK, Hartman CA |
The world journal of biological psychiatry : the official journal of the World Federation of Societies of Biological Psychiatry |
28635543 |
World J Biol Psychiatry |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/28635543 |
| Cortical abnormalities in bipolar disorder: an MRI analysis of 6503 individuals from the ENIGMA Bipolar Disorder Working Group. |
Hibar DP, Westlye LT, Doan NT, Jahanshad N, Cheung JW, Ching CRK, Versace A, Bilderbeck AC, Uhlmann A, Mwangi B, Krämer B, Overs B, Hartberg CB, Abé C, Dima D, Grotegerd D, Sprooten E, Bøen E, Jimenez E, Howells FM, Delvecchio G, Temmingh H, Starke J, Almeida JRC, Goikolea JM, Houenou J, Beard LM, Rauer L, Abramovic L, Bonnin M, Ponteduro MF, Keil M, Rive MM, Yao N, Yalin N, Najt P, Rosa PG, Redlich R, Trost S, Hagenaars S, Fears SC, Alonso-Lana S, van Erp TGM, Nickson T, Chaim-Avancini TM, Meier TB, Elvsåshagen T, Haukvik UK, Lee WH, Schene AH, Lloyd AJ, Young AH, Nugent A, Dale AM, Pfennig A, McIntosh AM, Lafer B, Baune BT, Ekman CJ, Zarate CA, Bearden CE, Henry C, Simhandl C, McDonald C, Bourne C, Stein DJ, Wolf DH, Cannon DM, Glahn DC, Veltman DJ, Pomarol-Clotet E, Vieta E, Canales-Rodriguez EJ, Nery FG, Duran FLS, Busatto GF, Roberts G, Pearlson GD, Goodwin GM, Kugel H, Whalley HC, Ruhe HG, Soares JC, Fullerton JM, Rybakowski JK, Savitz J, Chaim KT, Fatjó-Vilas M, Soeiro-de-Souza MG, Boks MP, Zanetti MV, Otaduy MCG, Schaufelberger MS, Alda M, Ingvar M, Phillips ML, Kempton MJ, Bauer M, Landén M, Lawrence NS, van Haren NEM, Horn NR, Freimer NB, Gruber O, Schofield PR, Mitchell PB, Kahn RS, Lenroot R, Machado-Vieira R, Ophoff RA, Sarró S, Frangou S, Satterthwaite TD, Hajek T, Dannlowski U, Malt UF, Arolt V, Gattaz WF, Drevets WC, Caseras X, Agartz I, Thompson PM, Andreassen OA |
Molecular psychiatry |
28461699 |
Mol Psychiatry |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/28461699 |
| Allostatic load and reduced cortical thickness in schizophrenia. |
Chiappelli J, Kochunov P, Savransky A, Fisseha F, Wisner K, Du X, Rowland LM, Hong LE |
Psychoneuroendocrinology |
28027496 |
Psychoneuroendocrinology |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28027496 |
| Human subcortical brain asymmetries in 15,847 people worldwide reveal effects of age and sex. |
Guadalupe T, Mathias SR, vanErp TGM, Whelan CD, Zwiers MP, Abe Y, Abramovic L, Agartz I, Andreassen OA, Arias-Vásquez A, Aribisala BS, Armstrong NJ, Arolt V, Artiges E, Ayesa-Arriola R, Baboyan VG, Banaschewski T, Barker G, Bastin ME, Baune BT, Blangero J, Bokde ALW, Boedhoe PSW, Bose A, Brem S, Brodaty H, Bromberg U, Brooks S, Büchel C, Buitelaar J, Calhoun VD, Cannon DM, Cattrell A, Cheng Y, Conrod PJ, Conzelmann A, Corvin A, Crespo-Facorro B, Crivello F, Dannlowski U, de Zubicaray GI, de Zwarte SMC, Deary IJ, Desrivières S, Doan NT, Donohoe G, Dørum ES, Ehrlich S, Espeseth T, Fernández G, Flor H, Fouche JP, Frouin V, Fukunaga M, Gallinat J, Garavan H, Gill M, Suarez AG, Gowland P, Grabe HJ, Grotegerd D, Gruber O, Hagenaars S, Hashimoto R, Hauser TU, Heinz A, Hibar DP, Hoekstra PJ, Hoogman M, Howells FM, Hu H, Hulshoff Pol HE, Huyser C, Ittermann B, Jahanshad N, Jönsson EG, Jurk S, Kahn RS, Kelly S, Kraemer B, Kugel H, Kwon JS, Lemaitre H, Lesch KP, Lochner C, Luciano M, Marquand AF, Martin NG, Martínez-Zalacaín I, Martinot JL, Mataix-Cols D, Mather K, McDonald C, McMahon KL, Medland SE, Menchón JM, Morris DW, Mothersill O, Maniega SM, Mwangi B, Nakamae T, Nakao T, Narayanaswaamy JC, Nees F, Nordvik JE, Onnink AMH, Opel N, Ophoff R, Paillère Martinot ML, Papadopoulos Orfanos D, Pauli P, Paus T, Poustka L, Reddy JY, Renteria ME, Roiz-Santiáñez R, Roos A, Royle NA, Sachdev P, Sánchez-Juan P, Schmaal L, Schumann G, Shumskaya E, Smolka MN, Soares JC, Soriano-Mas C, Stein DJ, Strike LT, Toro R, Turner JA, Tzourio-Mazoyer N, Uhlmann A, Hernández MV, van den Heuvel OA, van der Meer D, van Haren NEM, Veltman DJ, Venkatasubramanian G, Vetter NC, Vuletic D, Walitza S, Walter H, Walton E, Wang Z, Wardlaw J, Wen W, Westlye LT, Whelan R, Wittfeld K, Wolfers T, Wright MJ, Xu J, Xu X, Yun JY, Zhao J, Franke B, Thompson PM, Glahn DC, Mazoyer B, Fisher SE, Francks C |
Brain imaging and behavior |
27738994 |
Brain Imaging Behav |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/27738994 |
| Common genetic variants influence human subcortical brain structures. |
Hibar DP, Stein JL, Renteria ME, Arias-Vasquez A, Desrivières S, Jahanshad N, Toro R, Wittfeld K, Abramovic L, Andersson M, Aribisala BS, Armstrong NJ, Bernard M, Bohlken MM, Boks MP, Bralten J, Brown AA, Chakravarty MM, Chen Q, Ching CR, Cuellar-Partida G, den Braber A, Giddaluru S, Goldman AL, Grimm O, Guadalupe T, Hass J, Woldehawariat G, Holmes AJ, Hoogman M, Janowitz D, Jia T, Kim S, Klein M, Kraemer B, Lee PH, Olde Loohuis LM, Luciano M, Macare C, Mather KA, Mattheisen M, Milaneschi Y, Nho K, Papmeyer M, Ramasamy A, Risacher SL, Roiz-Santiañez R, Rose EJ, Salami A, Sämann PG, Schmaal L, Schork AJ, Shin J, Strike LT, Teumer A, van Donkelaar MM, van Eijk KR, Walters RK, Westlye LT, Whelan CD, Winkler AM, Zwiers MP, Alhusaini S, Athanasiu L, Ehrlich S, Hakobjan MM, Hartberg CB, Haukvik UK, Heister AJ, Hoehn D, Kasperaviciute D, Liewald DC, Lopez LM, Makkinje RR, Matarin M, Naber MA, McKay DR, Needham M, Nugent AC, Pütz B, Royle NA, Shen L, Sprooten E, Trabzuni D, van der Marel SS, van Hulzen KJ, Walton E, Wolf C, Almasy L, Ames D, Arepalli S, Assareh AA, Bastin ME, Brodaty H, Bulayeva KB, Carless MA, Cichon S, Corvin A, Curran JE, Czisch M, de Zubicaray GI, Dillman A, Duggirala R, Dyer TD, Erk S, Fedko IO, Ferrucci L, Foroud TM, Fox PT, Fukunaga M, Gibbs JR, Göring HH, Green RC, Guelfi S, Hansell NK, Hartman CA, Hegenscheid K, Heinz A, Hernandez DG, Heslenfeld DJ, Hoekstra PJ, Holsboer F, Homuth G, Hottenga JJ, Ikeda M, Jack CR Jr, Jenkinson M, Johnson R, Kanai R, Keil M, Kent JW Jr, Kochunov P, Kwok JB, Lawrie SM, Liu X, Longo DL, McMahon KL, Meisenzahl E, Melle I, Mohnke S, Montgomery GW, Mostert JC, Mühleisen TW, Nalls MA, Nichols TE, Nilsson LG, Nöthen MM, Ohi K, Olvera RL, Perez-Iglesias R, Pike GB, Potkin SG, Reinvang I, Reppermund S, Rietschel M, Romanczuk-Seiferth N, Rosen GD, Rujescu D, Schnell K, Schofield PR, Smith C, Steen VM, Sussmann JE, Thalamuthu A, Toga AW, Traynor BJ, Troncoso J, Turner JA, Valdés Hernández MC, van 't Ent D, van der Brug M, van der Wee NJ, van Tol MJ, Veltman DJ, Wassink TH, Westman E, Zielke RH, Zonderman AB, Ashbrook DG, Hager R, Lu L, McMahon FJ, Morris DW, Williams RW, Brunner HG, Buckner RL, Buitelaar JK, Cahn W, Calhoun VD, Cavalleri GL, Crespo-Facorro B, Dale AM, Davies GE, Delanty N, Depondt C, Djurovic S, Drevets WC, Espeseth T, Gollub RL, Ho BC, Hoffmann W, Hosten N, Kahn RS, Le Hellard S, Meyer-Lindenberg A, Müller-Myhsok B, Nauck M, Nyberg L, Pandolfo M, Penninx BW, Roffman JL, Sisodiya SM, Smoller JW, van Bokhoven H, van Haren NE, Völzke H, Walter H, Weiner MW, Wen W, White T, Agartz I, Andreassen OA, Blangero J, Boomsma DI, Brouwer RM, Cannon DM, Cookson MR, de Geus EJ, Deary IJ, Donohoe G, Fernández G, Fisher SE, Francks C, Glahn DC, Grabe HJ, Gruber O, Hardy J, Hashimoto R, Hulshoff Pol HE, Jönsson EG, Kloszewska I, Lovestone S, Mattay VS, Mecocci P, McDonald C, McIntosh AM, Ophoff RA, Paus T, Pausova Z, Ryten M, Sachdev PS, Saykin AJ, Simmons A, Singleton A, Soininen H, Wardlaw JM, Weale ME, Weinberger DR, Adams HH, Launer LJ, Seiler S, Schmidt R, Chauhan G, Satizabal CL, Becker JT, Yanek L, van der Lee SJ, Ebling M, Fischl B, Longstreth WT Jr, Greve D, Schmidt H, Nyquist P, Vinke LN, van Duijn CM, Xue L, Mazoyer B, Bis JC, Gudnason V, Seshadri S, Ikram MA, Alzheimer’s Disease Neuroimaging Initiative, CHARGE Consortium, EPIGEN, IMAGEN, SYS, Martin NG, Wright MJ, Schumann G, Franke B, Thompson PM, Medland SE |
Nature |
25607358 |
Nature |
2015 Apr 9 |
https://www.ncbi.nlm.nih.gov/pubmed/25607358 |
| Predicting the Naturalistic Course of Major Depressive Disorder Using Clinical and Multimodal Neuroimaging Information: A Multivariate Pattern Recognition Study. |
Schmaal L, Marquand AF, Rhebergen D, van Tol MJ, Ruhé HG, van der Wee NJ, Veltman DJ, Penninx BW |
Biological psychiatry |
25702259 |
Biol Psychiatry |
2015 Aug 15 |
https://www.ncbi.nlm.nih.gov/pubmed/25702259 |
| Genetics of microstructure of the corpus callosum in older adults. |
Kanchibhotla SC, Mather KA, Thalamuthu A, Zhuang L, Schofield PR, Kwok JB, Ames D, Wright MJ, Trollor JN, Wen W, Sachdev PS |
PloS one |
25514436 |
PLoS One |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/25514436 |
| Seemingly unrelated regression empowers detection of network failure in dementia. |
Jahanshad N, Nir TM, Toga AW, Jack CR Jr, Bernstein MA, Weiner MW, Thompson PM, Alzheimer's Disease Neuroimaging Initiative |
Neurobiology of aging |
25257986 |
Neurobiol Aging |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25257986 |
| Empowering imaging biomarkers of Alzheimer's disease. |
Gutman BA, Wang Y, Yanovsky I, Hua X, Toga AW, Jack CR Jr, Weiner MW, Thompson PM, Alzheimer's Disease Neuroimaging Initiative |
Neurobiology of aging |
25260848 |
Neurobiol Aging |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25260848 |
| Joint genetic analysis of hippocampal size in mouse and human identifies a novel gene linked to neurodegenerative disease. |
Ashbrook DG, Williams RW, Lu L, Stein JL, Hibar DP, Nichols TE, Medland SE, Thompson PM, Hager R |
BMC genomics |
25280473 |
BMC Genomics |
2014 Oct 3 |
https://www.ncbi.nlm.nih.gov/pubmed/25280473 |
| Simultaneous Longitudinal Registration with Group-Wise Similarity Prior. |
Fleishman GM, Gutman BA, Fletcher PT, Thompson PM |
Information processing in medical imaging : proceedings of the ... conference |
26213451 |
Inf Process Med Imaging |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26213451 |
| Regular fish consumption and age-related brain gray matter loss. |
Raji CA, Erickson KI, Lopez OL, Kuller LH, Gach HM, Thompson PM, Riverol M, Becker JT |
American journal of preventive medicine |
25084680 |
Am J Prev Med |
2014 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/25084680 |
| Neural dysregulation during a working memory task in human immunodeficiency virus-seropositive and hepatitis C coinfected individuals. |
Caldwell JZ, Gongvatana A, Navia BA, Sweet LH, Tashima K, Ding M, Cohen RA |
Journal of neurovirology |
24867610 |
J Neurovirol |
2014 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/24867610 |
| Striatal activity and reduced white matter increase frontal activity in youths with family histories of alcohol and other substance-use disorders performing a go/no-go task. |
Acheson A, Tagamets MA, Winkler A, Rowland LM, Mathias CW, Wright SN, Hong LE, Kochunov P, Dougherty DM |
Brain and behavior |
26221573 |
Brain Behav |
2015 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/26221573 |
| Childhood abuse and deprivation are associated with distinct sex-dependent differences in brain morphology. |
Everaerd D, Klumpers F, Zwiers M, Guadalupe T, Franke B, van Oostrom I, Schene A, Fernández G, Tendolkar I |
Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology |
26576924 |
Neuropsychopharmacology |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26576924 |
| Similar Subgroups Based on Cognitive Performance Parse Heterogeneity in Adults With ADHD and Healthy Controls. |
Mostert JC, Hoogman M, Onnink AMH, van Rooij D, von Rhein D, van Hulzen KJE, Dammers J, Kan CC, Buitelaar JK, Norris DG, Franke B |
Journal of attention disorders |
26374770 |
J Atten Disord |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/26374770 |
| Information-Theoretic Characterization of Blood Panel Predictors for Brain Atrophy and Cognitive Decline in the Elderly. |
Madsen SK, Ver Steeg G, Mezher A, Jahanshad N, Nir TM, Hua X, Gutman BA, Galstyan A, Thompson PM, Alzheimer’s Disease Neuroimaging Initiative (ADNI) |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413208 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413208 |
| Neuroanatomical correlates of emotional blunting in behavioral variant frontotemporal dementia and early-onset Alzheimer's disease. |
Lee GJ, Lu PH, Mather MJ, Shapira J, Jimenez E, Leow AD, Thompson PM, Mendez MF |
Journal of Alzheimer's disease : JAD |
24685626 |
J Alzheimers Dis |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/24685626 |
| Medial temporal atrophy in early and late-onset Alzheimer's disease. |
Cavedo E, Pievani M, Boccardi M, Galluzzi S, Bocchetta M, Bonetti M, Thompson PM, Frisoni GB |
Neurobiology of aging |
24721821 |
Neurobiol Aging |
2014 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/24721821 |
| Associations between depression and anxiety symptoms and retinal vessel caliber in adolescents and young adults. |
Meier MH, Gillespie NA, Hansell NK, Hewitt AW, Hickie IB, Lu Y, MacGregor S, Medland SE, Sun C, Wong TY, Wright MJ, Zhu G, Martin NG, Mackey DA |
Psychosomatic medicine |
25373892 |
Psychosom Med |
2014 Nov-Dec |
https://www.ncbi.nlm.nih.gov/pubmed/25373892 |
| Relationship between Systemic and Cerebral Vascular Disease and Brain Structure Integrity in Normal Elderly Individuals. |
Riverol M, Becker JT, López OL, Raji CA, Thompson PM, Carmichael OT, Gach HM, Longstreth WT Jr, Fried L, Tracy RP, Kuller LH |
Journal of Alzheimer's disease : JAD |
25213770 |
J Alzheimers Dis |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/25213770 |
| Shared genetic factors influence amygdala volumes and risk for alcoholism. |
Dager AD, McKay DR, Kent JW Jr, Curran JE, Knowles E, Sprooten E, Göring HH, Dyer TD, Pearlson GD, Olvera RL, Fox PT, Lovallo WR, Duggirala R, Almasy L, Blangero J, Glahn DC |
Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology |
25079289 |
Neuropsychopharmacology |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25079289 |
| Genomic structural variants are linked with intellectual disability. |
Bulayeva K, Lesch KP, Bulayev O, Walsh C, Glatt S, Gurgenova F, Omarova J, Berdichevets I, Thompson PM |
Journal of neural transmission (Vienna, Austria : 1996) |
25626716 |
J Neural Transm (Vienna) |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/25626716 |
| Impact of family structure and common environment on heritability estimation for neuroimaging genetics studies using Sequential Oligogenic Linkage Analysis Routines. |
Koran ME, Thornton-Wells TA, Jahanshad N, Glahn DC, Thompson PM, Blangero J, Nichols TE, Kochunov P, Landman BA |
Journal of medical imaging (Bellingham, Wash.) |
25558465 |
J Med Imaging (Bellingham) |
2014 Jun 27 |
https://www.ncbi.nlm.nih.gov/pubmed/25558465 |
| Impact of Early and Late Visual Deprivation on the Structure of the Corpus Callosum: A Study Combining Thickness Profile with Surface Tensor-Based Morphometry. |
Shi J, Collignon O, Xu L, Wang G, Kang Y, Leporé F, Lao Y, Joshi AA, Leporé N, Wang Y |
Neuroinformatics |
25649876 |
Neuroinformatics |
2015 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/25649876 |
| Partial volume correction in quantitative amyloid imaging. |
Su Y, Blazey TM, Snyder AZ, Raichle ME, Marcus DS, Ances BM, Bateman RJ, Cairns NJ, Aldea P, Cash L, Christensen JJ, Friedrichsen K, Hornbeck RC, Farrar AM, Owen CJ, Mayeux R, Brickman AM, Klunk W, Price JC, Thompson PM, Ghetti B, Saykin AJ, Sperling RA, Johnson KA, Schofield PR, Buckles V, Morris JC, Benzinger TLS, Dominantly Inherited Alzheimer Network |
NeuroImage |
25485714 |
Neuroimage |
2015 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/25485714 |
| Mediodorsal and visual thalamic connectivity differ in schizophrenia and bipolar disorder with and without psychosis history. |
Anticevic A, Yang G, Savic A, Murray JD, Cole MW, Repovs G, Pearlson GD, Glahn DC |
Schizophrenia bulletin |
25031221 |
Schizophr Bull |
2014 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/25031221 |
| Communication of brain network core connections altered in behavioral variant frontotemporal dementia but possibly preserved in early-onset Alzheimer's disease. |
Daianu M, Jahanshad N, Mendez MF, Bartzokis G, Jimenez EE, Thompson PM |
Proceedings of SPIE--the International Society for Optical Engineering |
25848494 |
Proc SPIE Int Soc Opt Eng |
2015 Mar 20 |
https://www.ncbi.nlm.nih.gov/pubmed/25848494 |
| Contributions of Feature Binding During Encoding and Functional Connectivity of the Medial Temporal Lobe Structures to Episodic Memory Deficits Across the Prodromal and First-Episode Phases of Schizophrenia. |
Haut KM, van Erp TG, Knowlton B, Bearden CE, Subotnik K, Ventura J, Nuechterlein KH, Cannon TD |
Clinical psychological science : a journal of the Association for Psychological Science |
25750836 |
Clin Psychol Sci |
2015 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/25750836 |
| Novel Neuroimaging Methods to Understand How HIV Affects the Brain. |
Thompson PM, Jahanshad N |
Current HIV/AIDS reports |
25902966 |
Curr HIV/AIDS Rep |
2015 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/25902966 |
| Age exacerbates HIV-associated white matter abnormalities. |
Seider TR, Gongvatana A, Woods AJ, Chen H, Porges EC, Cummings T, Correia S, Tashima K, Cohen RA |
Journal of neurovirology |
26446690 |
J Neurovirol |
2016 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26446690 |
| Fused Lasso Screening Rules via the Monotonicity of Subdifferentials. |
Wang J, Fan W, Ye J |
IEEE transactions on pattern analysis and machine intelligence |
26353128 |
IEEE Trans Pattern Anal Mach Intell |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26353128 |
| Enlarged striatal volume in adults with ADHD carrying the 9-6 haplotype of the dopamine transporter gene DAT1. |
Onnink AM, Franke B, van Hulzen K, Zwiers MP, Mostert JC, Schene AH, Heslenfeld DJ, Oosterlaan J, Hoekstra PJ, Hartman CA, Vasquez AA, Kan CC, Buitelaar J, Hoogman M |
Journal of neural transmission (Vienna, Austria : 1996) |
26935821 |
J Neural Transm (Vienna) |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26935821 |
| The effect of increased genetic risk for Alzheimer's disease on hippocampal and amygdala volume. |
Lupton MK, Strike L, Hansell NK, Wen W, Mather KA, Armstrong NJ, Thalamuthu A, McMahon KL, de Zubicaray GI, Assareh AA, Simmons A, Proitsi P, Powell JF, Montgomery GW, Hibar DP, Westman E, Tsolaki M, Kloszewska I, Soininen H, Mecocci P, Velas B, Lovestone S, Alzheimer's Disease Neuroimaging Initiative, Brodaty H, Ames D, Trollor JN, Martin NG, Thompson PM, Sachdev PS, Wright MJ |
Neurobiology of aging |
26973105 |
Neurobiol Aging |
2016 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26973105 |
| Multiple testing correction in linear mixed models. |
Joo JW, Hormozdiari F, Han B, Eskin E |
Genome biology |
27039378 |
Genome Biol |
2016 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27039378 |
| Comment: Getting a handle on HAND in the era of cART. |
Cohen RA, Navia B |
Neurology |
26718565 |
Neurology |
2016 Jan 26 |
https://www.ncbi.nlm.nih.gov/pubmed/26718565 |
| Abnormal asymmetries in subcortical brain volume in schizophrenia. |
Okada N, Fukunaga M, Yamashita F, Koshiyama D, Yamamori H, Ohi K, Yasuda Y, Fujimoto M, Watanabe Y, Yahata N, Nemoto K, Hibar DP, van Erp TG, Fujino H, Isobe M, Isomura S, Natsubori T, Narita H, Hashimoto N, Miyata J, Koike S, Takahashi T, Yamasue H, Matsuo K, Onitsuka T, Iidaka T, Kawasaki Y, Yoshimura R, Watanabe Y, Suzuki M, Turner JA, Takeda M, Thompson PM, Ozaki N, Kasai K, Hashimoto R |
Molecular psychiatry |
26782053 |
Mol Psychiatry |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/26782053 |
| Pallidum and lateral ventricle volume enlargement in autism spectrum disorder. |
Turner AH, Greenspan KS, van Erp TGM |
Psychiatry research. Neuroimaging |
27179315 |
Psychiatry Res Neuroimaging |
2016 Jun 30 |
https://www.ncbi.nlm.nih.gov/pubmed/27179315 |
| Pathway analysis in attention deficit hyperactivity disorder: An ensemble approach. |
Mooney MA, McWeeney SK, Faraone SV, Hinney A, Hebebrand J, IMAGE2 Consortium, German ADHD GWAS Group, Nigg JT, Wilmot B |
American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics |
27004716 |
Am J Med Genet B Neuropsychiatr Genet |
2016 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/27004716 |
| Sparse PCA corrects for cell type heterogeneity in epigenome-wide association studies. |
Rahmani E, Zaitlen N, Baran Y, Eng C, Hu D, Galanter J, Oh S, Burchard EG, Eskin E, Zou J, Halperin E |
Nature methods |
27018579 |
Nat Methods |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/27018579 |
| Genetic influences on schizophrenia and subcortical brain volumes: large-scale proof of concept. |
Franke B, Stein JL, Ripke S, Anttila V, Hibar DP, van Hulzen KJE, Arias-Vasquez A, Smoller JW, Nichols TE, Neale MC, McIntosh AM, Lee P, McMahon FJ, Meyer-Lindenberg A, Mattheisen M, Andreassen OA, Gruber O, Sachdev PS, Roiz-Santiañez R, Saykin AJ, Ehrlich S, Mather KA, Turner JA, Schwarz E, Thalamuthu A, Shugart YY, Ho YY, Martin NG, Wright MJ, Schizophrenia Working Group of the Psychiatric Genomics Consortium, ENIGMA Consortium, O'Donovan MC, Thompson PM, Neale BM, Medland SE, Sullivan PF |
Nature neuroscience |
26854805 |
Nat Neurosci |
2016 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/26854805 |
| Subcortical volumetric abnormalities in bipolar disorder. |
Hibar DP, Westlye LT, van Erp TG, Rasmussen J, Leonardo CD, Faskowitz J, Haukvik UK, Hartberg CB, Doan NT, Agartz I, Dale AM, Gruber O, Krämer B, Trost S, Liberg B, Abé C, Ekman CJ, Ingvar M, Landén M, Fears SC, Freimer NB, Bearden CE, Costa Rica/Colombia Consortium for Genetic Investigation of Bipolar Endophenotypes, Sprooten E, Glahn DC, Pearlson GD, Emsell L, Kenney J, Scanlon C, McDonald C, Cannon DM, Almeida J, Versace A, Caseras X, Lawrence NS, Phillips ML, Dima D, Delvecchio G, Frangou S, Satterthwaite TD, Wolf D, Houenou J, Henry C, Malt UF, Bøen E, Elvsåshagen T, Young AH, Lloyd AJ, Goodwin GM, Mackay CE, Bourne C, Bilderbeck A, Abramovic L, Boks MP, van Haren NE, Ophoff RA, Kahn RS, Bauer M, Pfennig A, Alda M, Hajek T, Mwangi B, Soares JC, Nickson T, Dimitrova R, Sussmann JE, Hagenaars S, Whalley HC, McIntosh AM, Thompson PM, Andreassen OA |
Molecular psychiatry |
26857596 |
Mol Psychiatry |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/26857596 |
| Algebraic connectivity of brain networks shows patterns of segregation leading to reduced network robustness in Alzheimer's disease. |
Daianu M, Jahanshad N, Nir TM, Leonardo CD, Jack CR Jr, Weiner MW, Bernstein MA, Thompson PM |
Computational diffusion MRI. CDMRI (Workshop) |
26640830 |
Comput Diffus MRI |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/26640830 |
| Voxel-based morphometry analysis reveals frontal brain differences in participants with ADHD and their unaffected siblings. |
Bralten J, Greven CU, Franke B, Mennes M, Zwiers MP, Rommelse NN, Hartman C, van der Meer D, O'Dwyer L, Oosterlaan J, Hoekstra PJ, Heslenfeld D, Arias-Vasquez A, Buitelaar JK |
Journal of psychiatry & neuroscience : JPN |
26679925 |
J Psychiatry Neurosci |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26679925 |
| Genetic imaging consortium for addiction medicine: From neuroimaging to genes. |
Mackey S, Kan KJ, Chaarani B, Alia-Klein N, Batalla A, Brooks S, Cousijn J, Dagher A, de Ruiter M, Desrivieres S, Feldstein Ewing SW, Goldstein RZ, Goudriaan AE, Heitzeg MM, Hutchison K, Li CS, London ED, Lorenzetti V, Luijten M, Martin-Santos R, Morales AM, Paulus MP, Paus T, Pearlson G, Schluter R, Momenan R, Schmaal L, Schumann G, Sinha R, Sjoerds Z, Stein DJ, Stein EA, Solowij N, Tapert S, Uhlmann A, Veltman D, van Holst R, Walter H, Wright MJ, Yucel M, Yurgelun-Todd D, Hibar DP, Jahanshad N, Thompson PM, Glahn DC, Garavan H, Conrod P |
Progress in brain research |
26822360 |
Prog Brain Res |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/26822360 |
| Influence of APOE Genotype on Hippocampal Atrophy over Time - An N=1925 Surface-Based ADNI Study. |
Li B, Shi J, Gutman BA, Baxter LC, Thompson PM, Caselli RJ, Wang Y, Alzheimer’s Disease Neuroimaging Initiative |
PloS one |
27065111 |
PLoS One |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27065111 |
| Multi-Source Multi-Target Dictionary Learning for Prediction of Cognitive Decline. |
Zhang J, Li Q, Caselli RJ, Thompson PM, Ye J, Wang Y |
Information processing in medical imaging : proceedings of the ... conference |
28943731 |
Inf Process Med Imaging |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28943731 |
| Novel genetic loci underlying human intracranial volume identified through genome-wide association. |
Adams HH, Hibar DP, Chouraki V, Stein JL, Nyquist PA, Rentería ME, Trompet S, Arias-Vasquez A, Seshadri S, Desrivières S, Beecham AH, Jahanshad N, Wittfeld K, Van der Lee SJ, Abramovic L, Alhusaini S, Amin N, Andersson M, Arfanakis K, Aribisala BS, Armstrong NJ, Athanasiu L, Axelsson T, Beiser A, Bernard M, Bis JC, Blanken LM, Blanton SH, Bohlken MM, Boks MP, Bralten J, Brickman AM, Carmichael O, Chakravarty MM, Chauhan G, Chen Q, Ching CR, Cuellar-Partida G, Braber AD, Doan NT, Ehrlich S, Filippi I, Ge T, Giddaluru S, Goldman AL, Gottesman RF, Greven CU, Grimm O, Griswold ME, Guadalupe T, Hass J, Haukvik UK, Hilal S, Hofer E, Hoehn D, Holmes AJ, Hoogman M, Janowitz D, Jia T, Kasperaviciute D, Kim S, Klein M, Kraemer B, Lee PH, Liao J, Liewald DC, Lopez LM, Luciano M, Macare C, Marquand A, Matarin M, Mather KA, Mattheisen M, Mazoyer B, McKay DR, McWhirter R, Milaneschi Y, Mirza-Schreiber N, Muetzel RL, Maniega SM, Nho K, Nugent AC, Loohuis LM, Oosterlaan J, Papmeyer M, Pappa I, Pirpamer L, Pudas S, Pütz B, Rajan KB, Ramasamy A, Richards JS, Risacher SL, Roiz-Santiañez R, Rommelse N, Rose EJ, Royle NA, Rundek T, Sämann PG, Satizabal CL, Schmaal L, Schork AJ, Shen L, Shin J, Shumskaya E, Smith AV, Sprooten E, Strike LT, Teumer A, Thomson R, Tordesillas-Gutierrez D, Toro R, Trabzuni D, Vaidya D, Van der Grond J, Van der Meer D, Van Donkelaar MM, Van Eijk KR, Van Erp TG, Van Rooij D, Walton E, Westlye LT, Whelan CD, Windham BG, Winkler AM, Woldehawariat G, Wolf C, Wolfers T, Xu B, Yanek LR, Yang J, Zijdenbos A, Zwiers MP, Agartz I, Aggarwal NT, Almasy L, Ames D, Amouyel P, Andreassen OA, Arepalli S, Assareh AA, Barral S, Bastin ME, Becker DM, Becker JT, Bennett DA, Blangero J, van Bokhoven H, Boomsma DI, Brodaty H, Brouwer RM, Brunner HG, Buckner RL, Buitelaar JK, Bulayeva KB, Cahn W, Calhoun VD, Cannon DM, Cavalleri GL, Chen C, Cheng CY, Cichon S, Cookson MR, Corvin A, Crespo-Facorro B, Curran JE, Czisch M, Dale AM, Davies GE, De Geus EJ, De Jager PL, de Zubicaray GI, Delanty N, Depondt C, DeStefano AL, Dillman A, Djurovic S, Donohoe G, Drevets WC, Duggirala R, Dyer TD, Erk S, Espeseth T, Evans DA, Fedko IO, Fernández G, Ferrucci L, Fisher SE, Fleischman DA, Ford I, Foroud TM, Fox PT, Francks C, Fukunaga M, Gibbs JR, Glahn DC, Gollub RL, Göring HH, Grabe HJ, Green RC, Gruber O, Gudnason V, Guelfi S, Hansell NK, Hardy J, Hartman CA, Hashimoto R, Hegenscheid K, Heinz A, Le Hellard S, Hernandez DG, Heslenfeld DJ, Ho BC, Hoekstra PJ, Hoffmann W, Hofman A, Holsboer F, Homuth G, Hosten N, Hottenga JJ, Hulshoff Pol HE, Ikeda M, Ikram MK, Jack CR Jr, Jenkinson M, Johnson R, Jönsson EG, Jukema JW, Kahn RS, Kanai R, Kloszewska I, Knopman DS, Kochunov P, Kwok JB, Lawrie SM, Lemaître H, Liu X, Longo DL, Longstreth WT Jr, Lopez OL, Lovestone S, Martinez O, Martinot JL, Mattay VS, McDonald C, McIntosh AM, McMahon KL, McMahon FJ, Mecocci P, Melle I, Meyer-Lindenberg A, Mohnke S, Montgomery GW, Morris DW, Mosley TH, Mühleisen TW, Müller-Myhsok B, Nalls MA, Nauck M, Nichols TE, Niessen WJ, Nöthen MM, Nyberg L, Ohi K, Olvera RL, Ophoff RA, Pandolfo M, Paus T, Pausova Z, Penninx BW, Pike GB, Potkin SG, Psaty BM, Reppermund S, Rietschel M, Roffman JL, Romanczuk-Seiferth N, Rotter JI, Ryten M, Sacco RL, Sachdev PS, Saykin AJ, Schmidt R, Schofield PR, Sigurdsson S, Simmons A, Singleton A, Sisodiya SM, Smith C, Smoller JW, Soininen H, Srikanth V, Steen VM, Stott DJ, Sussmann JE, Thalamuthu A, Tiemeier H, Toga AW, Traynor BJ, Troncoso J, Turner JA, Tzourio C, Uitterlinden AG, Hernández MC, Van der Brug M, Van der Lugt A, Van der Wee NJ, Van Duijn CM, Van Haren NE, Van T Ent D, Van Tol MJ, Vardarajan BN, Veltman DJ, Vernooij MW, Völzke H, Walter H, Wardlaw JM, Wassink TH, Weale ME, Weinberger DR, Weiner MW, Wen W, Westman E, White T, Wong TY, Wright CB, Zielke HR, Zonderman AB, Deary IJ, DeCarli C, Schmidt H, Martin NG, De Craen AJ, Wright MJ, Launer LJ, Schumann G, Fornage M, Franke B, Debette S, Medland SE, Ikram MA, Thompson PM |
Nature neuroscience |
27694991 |
Nat Neurosci |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27694991 |
| Cerebral amyloid is associated with greater white-matter hyperintensity accrual in cognitively normal older adults. |
Scott JA, Braskie MN, Tosun D, Maillard P, Thompson PM, Weiner M, DeCarli C, Carmichael OT, ADNI |
Neurobiology of aging |
27639120 |
Neurobiol Aging |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27639120 |
| Heritability estimates on resting state fMRI data using ENIGMA analysis pipeline. |
Adhikari BM, Jahanshad N, Shukla D, Glahn DC, Blangero J, Reynolds RC, Cox RW, Fieremans E, Veraart J, Novikov DS, Nichols TE, Hong LE, Thompson PM, Kochunov P |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
29218892 |
Pac Symp Biocomput |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29218892 |
| A Continuous Model of Cortical Connectivity. |
Moyer D, Gutman BA, Faskowitz J, Jahanshad N, Thompson PM |
Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention |
29147688 |
Med Image Comput Comput Assist Interv |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/29147688 |
| A volumetric conformal mapping approach for clustering white matter fibers in the brain. |
Gupta V, Prasad G, Thompson P |
Spectral and shape analysis in medical imaging : first International Workshop, SeSAMI 2016, held in conjunction with MICCAI 2016, Athens, Greece, October 21, 2016 : revised selected papers. SeSAMI (Workshop) (1st : 2016 : Athens, Greece) |
29177252 |
Spectr Shape Anal Med Imaging (2016) |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/29177252 |
| A NETWORK APPROACH TO EXAMINING INJURY SEVERITY IN PEDIATRIC TBI. |
Dennis EL, Rashid F, Jahanshad N, Babikian T, Mink R, Babbitt C, Johnson J, Giza CC, Asarnow RF, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
29201280 |
Proc IEEE Int Symp Biomed Imaging |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29201280 |
| APPROXIMATING PRINCIPAL GENETIC COMPONENTS OF SUBCORTICAL SHAPE. |
Gutman BA, Pizzagalli F, Jahanshad N, Wright MJ, McMahon KL, de Zubicaray G, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
29201284 |
Proc IEEE Int Symp Biomed Imaging |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29201284 |
| An Optimal Transportation based Univariate Neuroimaging Index. |
Mi L, Zhang W, Zhang J, Fan Y, Goradia D, Chen K, Reiman EM, Gu X, Wang Y |
Proceedings. IEEE International Conference on Computer Vision |
29225556 |
Proc IEEE Int Conf Comput Vis |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29225556 |
| Widespread white matter microstructural differences in schizophrenia across 4322 individuals: results from the ENIGMA Schizophrenia DTI Working Group. |
Kelly S, Jahanshad N, Zalesky A, Kochunov P, Agartz I, Alloza C, Andreassen OA, Arango C, Banaj N, Bouix S, Bousman CA, Brouwer RM, Bruggemann J, Bustillo J, Cahn W, Calhoun V, Cannon D, Carr V, Catts S, Chen J, Chen JX, Chen X, Chiapponi C, Cho KK, Ciullo V, Corvin AS, Crespo-Facorro B, Cropley V, De Rossi P, Diaz-Caneja CM, Dickie EW, Ehrlich S, Fan FM, Faskowitz J, Fatouros-Bergman H, Flyckt L, Ford JM, Fouche JP, Fukunaga M, Gill M, Glahn DC, Gollub R, Goudzwaard ED, Guo H, Gur RE, Gur RC, Gurholt TP, Hashimoto R, Hatton SN, Henskens FA, Hibar DP, Hickie IB, Hong LE, Horacek J, Howells FM, Hulshoff Pol HE, Hyde CL, Isaev D, Jablensky A, Jansen PR, Janssen J, Jönsson EG, Jung LA, Kahn RS, Kikinis Z, Liu K, Klauser P, Knöchel C, Kubicki M, Lagopoulos J, Langen C, Lawrie S, Lenroot RK, Lim KO, Lopez-Jaramillo C, Lyall A, Magnotta V, Mandl RCW, Mathalon DH, McCarley RW, McCarthy-Jones S, McDonald C, McEwen S, McIntosh A, Melicher T, Mesholam-Gately RI, Michie PT, Mowry B, Mueller BA, Newell DT, O'Donnell P, Oertel-Knöchel V, Oestreich L, Paciga SA, Pantelis C, Pasternak O, Pearlson G, Pellicano GR, Pereira A, Pineda Zapata J, Piras F, Potkin SG, Preda A, Rasser PE, Roalf DR, Roiz R, Roos A, Rotenberg D, Satterthwaite TD, Savadjiev P, Schall U, Scott RJ, Seal ML, Seidman LJ, Shannon Weickert C, Whelan CD, Shenton ME, Kwon JS, Spalletta G, Spaniel F, Sprooten E, Stäblein M, Stein DJ, Sundram S, Tan Y, Tan S, Tang S, Temmingh HS, Westlye LT, Tønnesen S, Tordesillas-Gutierrez D, Doan NT, Vaidya J, van Haren NEM, Vargas CD, Vecchio D, Velakoulis D, Voineskos A, Voyvodic JQ, Wang Z, Wan P, Wei D, Weickert TW, Whalley H, White T, Whitford TJ, Wojcik JD, Xiang H, Xie Z, Yamamori H, Yang F, Yao N, Zhang G, Zhao J, van Erp TGM, Turner J, Thompson PM, Donohoe G |
Molecular psychiatry |
29038599 |
Mol Psychiatry |
2018 May |
https://www.ncbi.nlm.nih.gov/pubmed/29038599 |
| Multi-modal Registration Improves Group Discrimination in Pediatric Traumatic Brain Injury. |
Dennis EL, Rashid F, Villalon-Reina J, Prasad G, Faskowitz J, Babikian T, Mink R, Babbitt C, Johnson J, Giza CC, Asarnow RF, Thompson PM |
Brainlesion : glioma, multiple sclerosis, stroke and traumatic brain injuries. BrainLes (Workshop) |
29147687 |
Brainlesion |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/29147687 |
| Refinement by integration: aggregated effects of multimodal imaging markers on adult ADHD. |
Wolfers T, Arenas AL, Onnink AMH, Dammers J, Hoogman M, Zwiers MP, Buitelaar JK, Franke B, Marquand AF, Beckmann CF |
Journal of psychiatry & neuroscience : JPN |
28832320 |
J Psychiatry Neurosci |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/28832320 |
| Single nucleotide polymorphism in the neuroplastin locus associates with cortical thickness and intellectual ability in adolescents. |
Desrivières S, Lourdusamy A, Tao C, Toro R, Jia T, Loth E, Medina LM, Kepa A, Fernandes A, Ruggeri B, Carvalho FM, Cocks G, Banaschewski T, Barker GJ, Bokde AL, Büchel C, Conrod PJ, Flor H, Heinz A, Gallinat J, Garavan H, Gowland P, Brühl R, Lawrence C, Mann K, Martinot ML, Nees F, Lathrop M, Poline JB, Rietschel M, Thompson P, Fauth-Bühler M, Smolka MN, Pausova Z, Paus T, Feng J, Schumann G, IMAGEN Consortium |
Molecular psychiatry |
24514566 |
Mol Psychiatry |
2015 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/24514566 |
| Hippocampal and amygdalar local structural differences in elderly patients with schizophrenia. |
Prestia A, Cavedo E, Boccardi M, Muscio C, Adorni A, Geroldi C, Bonetti M, Thompson PM, Frisoni GB |
The American journal of geriatric psychiatry : official journal of the American Association for Geriatric Psychiatry |
24534522 |
Am J Geriatr Psychiatry |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/24534522 |
| Automatic clustering of white matter fibers in brain diffusion MRI with an application to genetics. |
Jin Y, Shi Y, Zhan L, Gutman BA, de Zubicaray GI, McMahon KL, Wright MJ, Toga AW, Thompson PM |
NeuroImage |
24821529 |
Neuroimage |
2014 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/24821529 |
| Verbal memory declines more rapidly with age in HIV infected versus uninfected adults. |
Seider TR, Luo X, Gongvatana A, Devlin KN, de la Monte SM, Chasman JD, Yan P, Tashima KT, Navia B, Cohen RA |
Journal of clinical and experimental neuropsychology |
24645772 |
J Clin Exp Neuropsychol |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/24645772 |
| Large-scale mapping of cortical alterations in 22q11.2 deletion syndrome: Convergence with idiopathic psychosis and effects of deletion size. |
Sun D, Ching CRK, Lin A, Forsyth JK, Kushan L, Vajdi A, Jalbrzikowski M, Hansen L, Villalon-Reina JE, Qu X, Jonas RK, van Amelsvoort T, Bakker G, Kates WR, Antshel KM, Fremont W, Campbell LE, McCabe KL, Daly E, Gudbrandsen M, Murphy CM, Murphy D, Craig M, Vorstman J, Fiksinski A, Koops S, Ruparel K, Roalf DR, Gur RE, Schmitt JE, Simon TJ, Goodrich-Hunsaker NJ, Durdle CA, Bassett AS, Chow EWC, Butcher NJ, Vila-Rodriguez F, Doherty J, Cunningham A, van den Bree MBM, Linden DEJ, Moss H, Owen MJ, Murphy KC, McDonald-McGinn DM, Emanuel B, van Erp TGM, Turner JA, Thompson PM, Bearden CE |
Molecular psychiatry |
29895892 |
Mol Psychiatry |
2020 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29895892 |
| Stressful Life Events, ADHD Symptoms, and Brain Structure in Early Adolescence. |
Humphreys KL, Watts EL, Dennis EL, King LS, Thompson PM, Gotlib IH |
Journal of abnormal child psychology |
29785533 |
J Abnorm Child Psychol |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/29785533 |
| Genome-wide association meta-analysis in 269,867 individuals identifies new genetic and functional links to intelligence. |
Savage JE, Jansen PR, Stringer S, Watanabe K, Bryois J, de Leeuw CA, Nagel M, Awasthi S, Barr PB, Coleman JRI, Grasby KL, Hammerschlag AR, Kaminski JA, Karlsson R, Krapohl E, Lam M, Nygaard M, Reynolds CA, Trampush JW, Young H, Zabaneh D, Hägg S, Hansell NK, Karlsson IK, Linnarsson S, Montgomery GW, Muñoz-Manchado AB, Quinlan EB, Schumann G, Skene NG, Webb BT, White T, Arking DE, Avramopoulos D, Bilder RM, Bitsios P, Burdick KE, Cannon TD, Chiba-Falek O, Christoforou A, Cirulli ET, Congdon E, Corvin A, Davies G, Deary IJ, DeRosse P, Dickinson D, Djurovic S, Donohoe G, Conley ED, Eriksson JG, Espeseth T, Freimer NA, Giakoumaki S, Giegling I, Gill M, Glahn DC, Hariri AR, Hatzimanolis A, Keller MC, Knowles E, Koltai D, Konte B, Lahti J, Le Hellard S, Lencz T, Liewald DC, London E, Lundervold AJ, Malhotra AK, Melle I, Morris D, Need AC, Ollier W, Palotie A, Payton A, Pendleton N, Poldrack RA, Räikkönen K, Reinvang I, Roussos P, Rujescu D, Sabb FW, Scult MA, Smeland OB, Smyrnis N, Starr JM, Steen VM, Stefanis NC, Straub RE, Sundet K, Tiemeier H, Voineskos AN, Weinberger DR, Widen E, Yu J, Abecasis G, Andreassen OA, Breen G, Christiansen L, Debrabant B, Dick DM, Heinz A, Hjerling-Leffler J, Ikram MA, Kendler KS, Martin NG, Medland SE, Pedersen NL, Plomin R, Polderman TJC, Ripke S, van der Sluis S, Sullivan PF, Vrieze SI, Wright MJ, Posthuma D |
Nature genetics |
29942086 |
Nat Genet |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29942086 |
| Network-based approaches to examining stress in the adolescent brain. |
Ho TC, Dennis EL, Thompson PM, Gotlib IH |
Neurobiology of stress |
29888310 |
Neurobiol Stress |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29888310 |
| Significant concordance of genetic variation that increases both the risk for obsessive-compulsive disorder and the volumes of the nucleus accumbens and putamen. |
Hibar DP, Cheung JW, Medland SE, Mufford MS, Jahanshad N, Dalvie S, Ramesar R, Stewart E, van den Heuvel OA, Pauls DL, Knowles JA, Stein DJ, Thompson PM, Enhancing Neuro Imaging Genetics through Meta Analysis (ENIGMA) Consortium and International Obsessive Compulsive Disorder Foundation Genetics Collaborative (IOCDF-GC) |
The British journal of psychiatry : the journal of mental science |
29947313 |
Br J Psychiatry |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29947313 |
| The Added Value of Diffusion-Weighted MRI-Derived Structural Connectome in Evaluating Mild Cognitive Impairment: A Multi-Cohort Validation1. |
Wang Q, Guo L, Thompson PM, Jack CR, Dodge H, Zhan L, Zhou J, Alzheimer’s Disease Neuroimaging Initiative and National Alzheimer’s Coordinating Center |
Journal of Alzheimer's disease : JAD |
29865049 |
J Alzheimers Dis |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29865049 |
| Symptom dimensions in obsessive-compulsive disorder as predictors of neurobiology and treatment response. |
Thorsen AL, Kvale G, Hansen B, van den Heuvel OA |
Current treatment options in psychiatry |
30237966 |
Curr Treat Options Psychiatry |
2018 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30237966 |
| A resting state fMRI analysis pipeline for pooling inference across diverse cohorts: an ENIGMA rs-fMRI protocol. |
Adhikari BM, Jahanshad N, Shukla D, Turner J, Grotegerd D, Dannlowski U, Kugel H, Engelen J, Dietsche B, Krug A, Kircher T, Fieremans E, Veraart J, Novikov DS, Boedhoe PSW, van der Werf YD, van den Heuvel OA, Ipser J, Uhlmann A, Stein DJ, Dickie E, Voineskos AN, Malhotra AK, Pizzagalli F, Calhoun VD, Waller L, Veer IM, Walter H, Buchanan RW, Glahn DC, Hong LE, Thompson PM, Kochunov P |
Brain imaging and behavior |
30191514 |
Brain Imaging Behav |
2019 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/30191514 |
| The ventromedial prefrontal cortex: a putative locus for trait inattention. |
Albaugh MD, Potter AS |
Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology |
30194422 |
Neuropsychopharmacology |
2019 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/30194422 |
| Genome-wide association analysis links multiple psychiatric liability genes to oscillatory brain activity. |
Smit DJA, Wright MJ, Meyers JL, Martin NG, Ho YYW, Malone SM, Zhang J, Burwell SJ, Chorlian DB, de Geus EJC, Denys D, Hansell NK, Hottenga JJ, McGue M, van Beijsterveldt CEM, Jahanshad N, Thompson PM, Whelan CD, Medland SE, Porjesz B, Lacono WG, Boomsma DI |
Human brain mapping |
29947131 |
Hum Brain Mapp |
2018 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/29947131 |
| Computing Univariate Neurodegenerative Biomarkers with Volumetric Optimal Transportation: A Pilot Study. |
Tu Y, Mi L, Zhang W, Zhang H, Zhang J, Fan Y, Goradia D, Chen K, Caselli RJ, Reiman EM, Gu X, Wang Y, Alzheimer’s Disease Neuroimaging Initiative |
Neuroinformatics |
32253701 |
Neuroinformatics |
2020 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/32253701 |
| Educational attainment polygenic scores are associated with cortical total surface area and regions important for language and memory. |
Mitchell BL, Cuéllar-Partida G, Grasby KL, Campos AI, Strike LT, Hwang LD, Okbay A, Thompson PM, Medland SE, Martin NG, Wright MJ, Rentería ME |
NeuroImage |
32126298 |
Neuroimage |
2020 May 15 |
https://www.ncbi.nlm.nih.gov/pubmed/32126298 |
| BMI-related cortical morphometry changes are associated with altered white matter structure. |
Medic N, Kochunov P, Ziauddeen H, Ersche KD, Nathan PJ, Ronan L, Fletcher PC |
International journal of obesity (2005) |
30568264 |
Int J Obes (Lond) |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30568264 |
| A concise and persistent feature to study brain resting-state network dynamics: Findings from the Alzheimer's Disease Neuroimaging Initiative. |
Kuang L, Han X, Chen K, Caselli RJ, Reiman EM, Wang Y, Alzheimer's Disease Neuroimaging Initiative |
Human brain mapping |
30569583 |
Hum Brain Mapp |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30569583 |
| Attention-deficit/hyperactivity disorder and lifetime cannabis use: genetic overlap and causality. |
Soler Artigas M, Sánchez-Mora C, Rovira P, Richarte V, Garcia-Martínez I, Pagerols M, Demontis D, Stringer S, ADHD Group of the Psychiatric Genomics Consortium, International Cannabis Consortium, Vink JM, Børglum AD, Neale BM, Franke B, Faraone SV, Casas M, Ramos-Quiroga JA, Ribasés M |
Molecular psychiatry |
30610198 |
Mol Psychiatry |
2020 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/30610198 |
| Brain Imaging of the Cortex in ADHD: A Coordinated Analysis of Large-Scale Clinical and Population-Based Samples. |
Hoogman M, Muetzel R, Guimaraes JP, Shumskaya E, Mennes M, Zwiers MP, Jahanshad N, Sudre G, Wolfers T, Earl EA, Soliva Vila JC, Vives-Gilabert Y, Khadka S, Novotny SE, Hartman CA, Heslenfeld DJ, Schweren LJS, Ambrosino S, Oranje B, de Zeeuw P, Chaim-Avancini TM, Rosa PGP, Zanetti MV, Malpas CB, Kohls G, von Polier GG, Seitz J, Biederman J, Doyle AE, Dale AM, van Erp TGM, Epstein JN, Jernigan TL, Baur-Streubel R, Ziegler GC, Zierhut KC, Schrantee A, Høvik MF, Lundervold AJ, Kelly C, McCarthy H, Skokauskas N, O'Gorman Tuura RL, Calvo A, Lera-Miguel S, Nicolau R, Chantiluke KC, Christakou A, Vance A, Cercignani M, Gabel MC, Asherson P, Baumeister S, Brandeis D, Hohmann S, Bramati IE, Tovar-Moll F, Fallgatter AJ, Kardatzki B, Schwarz L, Anikin A, Baranov A, Gogberashvili T, Kapilushniy D, Solovieva A, El Marroun H, White T, Karkashadze G, Namazova-Baranova L, Ethofer T, Mattos P, Banaschewski T, Coghill D, Plessen KJ, Kuntsi J, Mehta MA, Paloyelis Y, Harrison NA, Bellgrove MA, Silk TJ, Cubillo AI, Rubia K, Lazaro L, Brem S, Walitza S, Frodl T, Zentis M, Castellanos FX, Yoncheva YN, Haavik J, Reneman L, Conzelmann A, Lesch KP, Pauli P, Reif A, Tamm L, Konrad K, Oberwelland Weiss E, Busatto GF, Louza MR, Durston S, Hoekstra PJ, Oosterlaan J, Stevens MC, Ramos-Quiroga JA, Vilarroya O, Fair DA, Nigg JT, Thompson PM, Buitelaar JK, Faraone SV, Shaw P, Tiemeier H, Bralten J, Franke B |
The American journal of psychiatry |
31014101 |
Am J Psychiatry |
2019 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31014101 |
| Quantifying performance of machine learning methods for neuroimaging data. |
Jollans L, Boyle R, Artiges E, Banaschewski T, Desrivières S, Grigis A, Martinot JL, Paus T, Smolka MN, Walter H, Schumann G, Garavan H, Whelan R |
NeuroImage |
31173905 |
Neuroimage |
2019 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31173905 |
| Neuroimaging Evidence for Right Orbitofrontal Cortex Differences in Adolescents With Emotional and Behavioral Dysregulation. |
Spechler PA, Chaarani B, Orr C, Mackey S, Higgins ST, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Conrod PJ, Desrivières S, Flor H, Frouin V, Gowland P, Heinz A, Ittermann B, Martinot JL, Nees F, Orfanos DP, Poustka L, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Garavan H, Althoff RR, IMAGEN Consortium |
Journal of the American Academy of Child and Adolescent Psychiatry |
31004740 |
J Am Acad Child Adolesc Psychiatry |
2019 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/31004740 |
| Predicting development of adolescent drinking behaviour from whole brain structure at 14 years of age. |
Kühn S, Mascharek A, Banaschewski T, Bodke A, Bromberg U, Büchel C, Quinlan EB, Desrivieres S, Flor H, Grigis A, Garavan H, Gowland PA, Heinz A, Ittermann B, Martinot JL, Nees F, Papadopoulos Orfanos D, Paus T, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Lindenberger U, Gallinat J, IMAGEN Consortium |
eLife |
31262402 |
Elife |
2019 Jul 2 |
https://www.ncbi.nlm.nih.gov/pubmed/31262402 |
| Interactive impact of childhood maltreatment, depression, and age on cortical brain structure: mega-analytic findings from a large multi-site cohort. |
Tozzi L, Garczarek L, Janowitz D, Stein DJ, Wittfeld K, Dobrowolny H, Lagopoulos J, Hatton SN, Hickie IB, Carballedo A, Brooks SJ, Vuletic D, Uhlmann A, Veer IM, Walter H, Bülow R, Völzke H, Klinger-König J, Schnell K, Schoepf D, Grotegerd D, Opel N, Dannlowski U, Kugel H, Schramm E, Konrad C, Kircher T, Jüksel D, Nenadić I, Krug A, Hahn T, Steinsträter O, Redlich R, Zaremba D, Zurowski B, Fu CHY, Dima D, Cole J, Grabe HJ, Connolly CG, Yang TT, Ho TC, LeWinn KZ, Li M, Groenewold NA, Salminen LE, Walter M, Simmons AN, van Erp TGM, Jahanshad N, Baune BT, van der Wee NJA, van Tol MJ, Penninx BWJH, Hibar DP, Thompson PM, Veltman DJ, Schmaal L, Frodl T, ‘for the ENIGMA-MDD Consortium’ |
Psychological medicine |
31084657 |
Psychol Med |
2020 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31084657 |
| Applying surface-based morphometry to study ventricular abnormalities of cognitively unimpaired subjects prior to clinically significant memory decline. |
Dong Q, Zhang W, Stonnington CM, Wu J, Gutman BA, Chen K, Su Y, Baxter LC, Thompson PM, Reiman EM, Caselli RJ, Wang Y |
NeuroImage. Clinical |
32683323 |
Neuroimage Clin |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32683323 |
| The ENIGMA sports injury working group:- an international collaboration to further our understanding of sport-related brain injury. |
Koerte IK, Esopenko C, Hinds SR 2nd, Shenton ME, Bonke EM, Bazarian JJ, Bickart KC, Bigler ED, Bouix S, Buckley TA, Choe MC, Echlin PS, Gill J, Giza CC, Hayes J, Hodges CB, Irimia A, Johnson PK, Kenney K, Levin HS, Lin AP, Lindsey HM, Lipton ML, Max JE, Mayer AR, Meier TB, Merchant-Borna K, Merkley TL, Mills BD, Newsome MR, Porfido T, Stephens JA, Tartaglia MC, Ware AL, Zafonte RD, Zeineh MM, Thompson PM, Tate DF, Dennis EL, Wilde EA, Baron D |
Brain imaging and behavior |
32720179 |
Brain Imaging Behav |
2021 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/32720179 |
| Genetic correlations and genome-wide associations of cortical structure in general population samples of 22,824 adults. |
Hofer E, Roshchupkin GV, Adams HHH, Knol MJ, Lin H, Li S, Zare H, Ahmad S, Armstrong NJ, Satizabal CL, Bernard M, Bis JC, Gillespie NA, Luciano M, Mishra A, Scholz M, Teumer A, Xia R, Jian X, Mosley TH, Saba Y, Pirpamer L, Seiler S, Becker JT, Carmichael O, Rotter JI, Psaty BM, Lopez OL, Amin N, van der Lee SJ, Yang Q, Himali JJ, Maillard P, Beiser AS, DeCarli C, Karama S, Lewis L, Harris M, Bastin ME, Deary IJ, Veronica Witte A, Beyer F, Loeffler M, Mather KA, Schofield PR, Thalamuthu A, Kwok JB, Wright MJ, Ames D, Trollor J, Jiang J, Brodaty H, Wen W, Vernooij MW, Hofman A, Uitterlinden AG, Niessen WJ, Wittfeld K, Bülow R, Völker U, Pausova Z, Bruce Pike G, Maingault S, Crivello F, Tzourio C, Amouyel P, Mazoyer B, Neale MC, Franz CE, Lyons MJ, Panizzon MS, Andreassen OA, Dale AM, Logue M, Grasby KL, Jahanshad N, Painter JN, Colodro-Conde L, Bralten J, Hibar DP, Lind PA, Pizzagalli F, Stein JL, Thompson PM, Medland SE, ENIGMA consortium, Sachdev PS, Kremen WS, Wardlaw JM, Villringer A, van Duijn CM, Grabe HJ, Longstreth WT Jr, Fornage M, Paus T, Debette S, Ikram MA, Schmidt H, Schmidt R, Seshadri S |
Nature communications |
32963231 |
Nat Commun |
2020 Sep 22 |
https://www.ncbi.nlm.nih.gov/pubmed/32963231 |
| Common and gender-specific associations with cocaine use on gray matter volume: Data from the ENIGMA addiction working group. |
Rabin RA, Mackey S, Parvaz MA, Cousijn J, Li CS, Pearlson G, Schmaal L, Sinha R, Stein E, Veltman D, Thompson PM, Conrod P, Garavan H, Alia-Klein N, Goldstein RZ |
Human brain mapping |
32857473 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32857473 |
| Neural Correlates of Adolescent Irritability and Its Comorbidity With Psychiatric Disorders. |
Chaarani B, Kan KJ, Mackey S, Spechler PA, Potter A, Banaschewski T, Millenet S, Bokde ALW, Bromberg U, Büchel C, Cattrell A, Conrod PJ, Desrivières S, Flor H, Frouin V, Gallinat J, Gowland P, Heinz A, Ittermann B, Martinot JL, Nees F, Paus T, Poustka L, Smolka MN, Walter H, Whelan R, Stringaris A, Higgins ST, Schumann G, Garavan H, Althoff RR, IMAGEN Consortium |
Journal of the American Academy of Child and Adolescent Psychiatry |
32860907 |
J Am Acad Child Adolesc Psychiatry |
2020 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/32860907 |
| What we learn about bipolar disorder from large-scale neuroimaging: Findings and future directions from the ENIGMA Bipolar Disorder Working Group. |
Ching CRK, Hibar DP, Gurholt TP, Nunes A, Thomopoulos SI, Abé C, Agartz I, Brouwer RM, Cannon DM, de Zwarte SMC, Eyler LT, Favre P, Hajek T, Haukvik UK, Houenou J, Landén M, Lett TA, McDonald C, Nabulsi L, Patel Y, Pauling ME, Paus T, Radua J, Soeiro-de-Souza MG, Tronchin G, van Haren NEM, Vieta E, Walter H, Zeng LL, Alda M, Almeida J, Alnaes D, Alonso-Lana S, Altimus C, Bauer M, Baune BT, Bearden CE, Bellani M, Benedetti F, Berk M, Bilderbeck AC, Blumberg HP, Bøen E, Bollettini I, Del Mar Bonnin C, Brambilla P, Canales-Rodríguez EJ, Caseras X, Dandash O, Dannlowski U, Delvecchio G, Díaz-Zuluaga AM, Dima D, Duchesnay É, Elvsåshagen T, Fears SC, Frangou S, Fullerton JM, Glahn DC, Goikolea JM, Green MJ, Grotegerd D, Gruber O, Haarman BCM, Henry C, Howells FM, Ives-Deliperi V, Jansen A, Kircher TTJ, Knöchel C, Kramer B, Lafer B, López-Jaramillo C, Machado-Vieira R, MacIntosh BJ, Melloni EMT, Mitchell PB, Nenadic I, Nery F, Nugent AC, Oertel V, Ophoff RA, Ota M, Overs BJ, Pham DL, Phillips ML, Pineda-Zapata JA, Poletti S, Polosan M, Pomarol-Clotet E, Pouchon A, Quidé Y, Rive MM, Roberts G, Ruhe HG, Salvador R, Sarró S, Satterthwaite TD, Schene AH, Sim K, Soares JC, Stäblein M, Stein DJ, Tamnes CK, Thomaidis GV, Upegui CV, Veltman DJ, Wessa M, Westlye LT, Whalley HC, Wolf DH, Wu MJ, Yatham LN, Zarate CA, Thompson PM, Andreassen OA, ENIGMA Bipolar Disorder Working Group |
Human brain mapping |
32725849 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32725849 |
| Intelligence, educational attainment, and brain structure in those at familial high-risk for schizophrenia or bipolar disorder. |
de Zwarte SMC, Brouwer RM, Agartz I, Alda M, Alonso-Lana S, Bearden CE, Bertolino A, Bonvino A, Bramon E, Buimer EEL, Cahn W, Canales-Rodríguez EJ, Cannon DM, Cannon TD, Caseras X, Castro-Fornieles J, Chen Q, Chung Y, De la Serna E, Del Mar Bonnin C, Demro C, Di Giorgio A, Doucet GE, Eker MC, Erk S, Fatjó-Vilas M, Fears SC, Foley SF, Frangou S, Fullerton JM, Glahn DC, Goghari VM, Goikolea JM, Goldman AL, Gonul AS, Gruber O, Hajek T, Hawkins EL, Heinz A, Hidiroglu Ongun C, Hillegers MHJ, Houenou J, Hulshoff Pol HE, Hultman CM, Ingvar M, Johansson V, Jönsson EG, Kane F, Kempton MJ, Koenis MMG, Kopecek M, Krämer B, Lawrie SM, Lenroot RK, Marcelis M, Mattay VS, McDonald C, Meyer-Lindenberg A, Michielse S, Mitchell PB, Moreno D, Murray RM, Mwangi B, Nabulsi L, Newport J, Olman CA, van Os J, Overs BJ, Ozerdem A, Pergola G, Picchioni MM, Piguet C, Pomarol-Clotet E, Radua J, Ramsay IS, Richter A, Roberts G, Salvador R, Saricicek Aydogan A, Sarró S, Schofield PR, Simsek EM, Simsek F, Soares JC, Sponheim SR, Sugranyes G, Toulopoulou T, Tronchin G, Vieta E, Walter H, Weinberger DR, Whalley HC, Wu MJ, Yalin N, Andreassen OA, Ching CRK, Thomopoulos SI, van Erp TGM, Jahanshad N, Thompson PM, Kahn RS, van Haren NEM |
Human brain mapping |
33027543 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33027543 |
| Testing a convolutional neural network-based hippocampal segmentation method in a stroke population. |
Zavaliangos-Petropulu A, Tubi MA, Haddad E, Zhu A, Braskie MN, Jahanshad N, Thompson PM, Liew SL |
Human brain mapping |
33067842 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33067842 |
| Psychological morbidities and fatigue in patients with confirmed COVID-19 during disease outbreak: prevalence and associated biopsychosocial risk factors. |
Qi R, Chen W, Liu S, Thompson PM, Zhang LJ, Xia F, Cheng F, Hong A, Surento W, Luo S, Sun ZY, Zhou CS, Li L, Jiang X, Lu GM |
medRxiv : the preprint server for health sciences |
32511502 |
medRxiv |
2020 May 11 |
https://www.ncbi.nlm.nih.gov/pubmed/32511502 |
| Common Genetic Variation Indicates Separate Causes for Periventricular and Deep White Matter Hyperintensities. |
Armstrong NJ, Mather KA, Sargurupremraj M, Knol MJ, Malik R, Satizabal CL, Yanek LR, Wen W, Gudnason VG, Dueker ND, Elliott LT, Hofer E, Bis J, Jahanshad N, Li S, Logue MA, Luciano M, Scholz M, Smith AV, Trompet S, Vojinovic D, Xia R, Alfaro-Almagro F, Ames D, Amin N, Amouyel P, Beiser AS, Brodaty H, Deary IJ, Fennema-Notestine C, Gampawar PG, Gottesman R, Griffanti L, Jack CR Jr, Jenkinson M, Jiang J, Kral BG, Kwok JB, Lampe L, C M Liewald D, Maillard P, Marchini J, Bastin ME, Mazoyer B, Pirpamer L, Rafael Romero J, Roshchupkin GV, Schofield PR, Schroeter ML, Stott DJ, Thalamuthu A, Trollor J, Tzourio C, van der Grond J, Vernooij MW, Witte VA, Wright MJ, Yang Q, Morris Z, Siggurdsson S, Psaty B, Villringer A, Schmidt H, Haberg AK, van Duijn CM, Jukema JW, Dichgans M, Sacco RL, Wright CB, Kremen WS, Becker LC, Thompson PM, Mosley TH, Wardlaw JM, Ikram MA, Adams HHH, Seshadri S, Sachdev PS, Smith SM, Launer L, Longstreth W, DeCarli C, Schmidt R, Fornage M, Debette S, Nyquist PA |
Stroke |
32517579 |
Stroke |
2020 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/32517579 |
| Geometric Brain Surface Network For Brain Cortical Parcellation. |
Zhang W, Wang Y |
Graph Learning in Medical Imaging : First International Workshop, GLMI 2019, Held in Conjunction with MICCAI 2019, Shenzhen, China, October 17, 2019, Proceedings |
33870335 |
Graph Learn Med Imaging (2019) |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/33870335 |
| Analysis of structural brain asymmetries in attention-deficit/hyperactivity disorder in 39 datasets. |
Postema MC, Hoogman M, Ambrosino S, Asherson P, Banaschewski T, Bandeira CE, Baranov A, Bau CHD, Baumeister S, Baur-Streubel R, Bellgrove MA, Biederman J, Bralten J, Brandeis D, Brem S, Buitelaar JK, Busatto GF, Castellanos FX, Cercignani M, Chaim-Avancini TM, Chantiluke KC, Christakou A, Coghill D, Conzelmann A, Cubillo AI, Cupertino RB, de Zeeuw P, Doyle AE, Durston S, Earl EA, Epstein JN, Ethofer T, Fair DA, Fallgatter AJ, Faraone SV, Frodl T, Gabel MC, Gogberashvili T, Grevet EH, Haavik J, Harrison NA, Hartman CA, Heslenfeld DJ, Hoekstra PJ, Hohmann S, Høvik MF, Jernigan TL, Kardatzki B, Karkashadze G, Kelly C, Kohls G, Konrad K, Kuntsi J, Lazaro L, Lera-Miguel S, Lesch KP, Louza MR, Lundervold AJ, Malpas CB, Mattos P, McCarthy H, Namazova-Baranova L, Nicolau R, Nigg JT, Novotny SE, Oberwelland Weiss E, O'Gorman Tuura RL, Oosterlaan J, Oranje B, Paloyelis Y, Pauli P, Picon FA, Plessen KJ, Ramos-Quiroga JA, Reif A, Reneman L, Rosa PGP, Rubia K, Schrantee A, Schweren LJS, Seitz J, Shaw P, Silk TJ, Skokauskas N, Soliva Vila JC, Stevens MC, Sudre G, Tamm L, Tovar-Moll F, van Erp TGM, Vance A, Vilarroya O, Vives-Gilabert Y, von Polier GG, Walitza S, Yoncheva YN, Zanetti MV, Ziegler GC, Glahn DC, Jahanshad N, Medland SE, ENIGMA ADHD Working Group, Thompson PM, Fisher SE, Franke B, Francks C |
Journal of child psychology and psychiatry, and allied disciplines |
33748971 |
J Child Psychol Psychiatry |
2021 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/33748971 |
| Sex and dependence related neuroanatomical differences in regular cannabis users: findings from the ENIGMA Addiction Working Group. |
Rossetti MG, Mackey S, Patalay P, Allen NB, Batalla A, Bellani M, Chye Y, Conrod P, Cousijn J, Garavan H, Goudriaan AE, Hester R, Martin-Santos R, Solowij N, Suo C, Thompson PM, Yücel M, Brambilla P, Lorenzetti V |
Translational psychiatry |
33958576 |
Transl Psychiatry |
2021 May 6 |
https://www.ncbi.nlm.nih.gov/pubmed/33958576 |
| Testing the extreme male brain hypothesis: Is autism spectrum disorder associated with a more male-typical brain? |
van Eijk L, Zietsch BP |
Autism research : official journal of the International Society for Autism Research |
34008924 |
Autism Res |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/34008924 |
| Reward Processing in Novelty Seekers: A Transdiagnostic Psychiatric Imaging Biomarker. |
Qi S, Schumann G, Bustillo J, Turner JA, Jiang R, Zhi D, Fu Z, Mayer AR, Vergara VM, Silva RF, Iraji A, Chen J, Damaraju E, Ma X, Yang X, Stevens M, Mathalon DH, Ford JM, Voyvodic J, Mueller BA, Belger A, Potkin SG, Preda A, Zhuo C, Xu Y, Chu C, Banaschewski T, Barker GJ, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Calhoun VD, Sui J, IMAGEN Consortium |
Biological psychiatry |
33875230 |
Biol Psychiatry |
2021 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/33875230 |
| Multi-Resemblance Multi-Target Low-Rank Coding for Prediction of Cognitive Decline With Longitudinal Brain Images. |
Zhang J, Wu J, Li Q, Caselli RJ, Thompson PM, Ye J, Wang Y |
IEEE transactions on medical imaging |
33798076 |
IEEE Trans Med Imaging |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/33798076 |
| Predicting alcohol dependence from multi-site brain structural measures. |
Hahn S, Mackey S, Cousijn J, Foxe JJ, Heinz A, Hester R, Hutchinson K, Kiefer F, Korucuoglu O, Lett T, Li CR, London E, Lorenzetti V, Maartje L, Momenan R, Orr C, Paulus M, Schmaal L, Sinha R, Sjoerds Z, Stein DJ, Stein E, van Holst RJ, Veltman D, Walter H, Wiers RW, Yucel M, Thompson PM, Conrod P, Allgaier N, Garavan H |
Human brain mapping |
33064342 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33064342 |
| Patch-Based Surface Morphometry Feature Selection with Federated Group Lasso Regression. |
Wu J, Zhang J, Li Q, Su Y, Chen K, Reiman EM, Wang J, Lepore N, Ye J, Thompson PM, Wang Y |
Proceedings of SPIE--the International Society for Optical Engineering |
33250550 |
Proc SPIE Int Soc Opt Eng |
2020 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/33250550 |
| A large-scale genome-wide association study meta-analysis of cannabis use disorder. |
Johnson EC, Demontis D, Thorgeirsson TE, Walters RK, Polimanti R, Hatoum AS, Sanchez-Roige S, Paul SE, Wendt FR, Clarke TK, Lai D, Reginsson GW, Zhou H, He J, Baranger DAA, Gudbjartsson DF, Wedow R, Adkins DE, Adkins AE, Alexander J, Bacanu SA, Bigdeli TB, Boden J, Brown SA, Bucholz KK, Bybjerg-Grauholm J, Corley RP, Degenhardt L, Dick DM, Domingue BW, Fox L, Goate AM, Gordon SD, Hack LM, Hancock DB, Hartz SM, Hickie IB, Hougaard DM, Krauter K, Lind PA, McClintick JN, McQueen MB, Meyers JL, Montgomery GW, Mors O, Mortensen PB, Nordentoft M, Pearson JF, Peterson RE, Reynolds MD, Rice JP, Runarsdottir V, Saccone NL, Sherva R, Silberg JL, Tarter RE, Tyrfingsson T, Wall TL, Webb BT, Werge T, Wetherill L, Wright MJ, Zellers S, Adams MJ, Bierut LJ, Boardman JD, Copeland WE, Farrer LA, Foroud TM, Gillespie NA, Grucza RA, Harris KM, Heath AC, Hesselbrock V, Hewitt JK, Hopfer CJ, Horwood J, Iacono WG, Johnson EO, Kendler KS, Kennedy MA, Kranzler HR, Madden PAF, Maes HH, Maher BS, Martin NG, McGue M, McIntosh AM, Medland SE, Nelson EC, Porjesz B, Riley BP, Stallings MC, Vanyukov MM, Vrieze S, Psychiatric Genomics Consortium Substance Use Disorders Workgroup, Davis LK, Bogdan R, Gelernter J, Edenberg HJ, Stefansson K, Børglum AD, Agrawal A |
The lancet. Psychiatry |
33096046 |
Lancet Psychiatry |
2020 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/33096046 |
| The Human Brain Is Best Described as Being on a Female/Male Continuum: Evidence from a Neuroimaging Connectivity Study. |
Zhang Y, Luo Q, Huang CC, Lo CZ, Langley C, Desrivières S, Quinlan EB, Banaschewski T, Millenet S, Bokde ALW, Flor H, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Artiges E, Paillère-Martinot ML, Nees F, Orfanos DP, Poustka L, Fröhner JH, Smolka MN, Walter H, Whelan R, Tsai SJ, Lin CP, Bullmore E, Schumann G, Sahakian BJ, Feng J, IMAGEN consortium |
Cerebral cortex (New York, N.Y. : 1991) |
33471126 |
Cereb Cortex |
2021 May 10 |
https://www.ncbi.nlm.nih.gov/pubmed/33471126 |
| Homogenizing Estimates of Heritability Among SOLAR-Eclipse, OpenMx, APACE, and FPHI Software Packages in Neuroimaging Data. |
Kochunov P, Patel B, Ganjgahi H, Donohue B, Ryan M, Hong EL, Chen X, Adhikari B, Jahanshad N, Thompson PM, Van't Ent D, den Braber A, de Geus EJC, Brouwer RM, Boomsma DI, Hulshoff Pol HE, de Zubicaray GI, McMahon KL, Martin NG, Wright MJ, Nichols TE |
Frontiers in neuroinformatics |
30914942 |
Front Neuroinform |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30914942 |
| Adaptive Identification of Cortical and Subcortical Imaging Markers of Early Life Stress and Posttraumatic Stress Disorder. |
Salminen LE, Morey RA, Riedel BC, Jahanshad N, Dennis EL, Thompson PM |
Journal of neuroimaging : official journal of the American Society of Neuroimaging |
30714246 |
J Neuroimaging |
2019 May |
https://www.ncbi.nlm.nih.gov/pubmed/30714246 |
| Neuroimaging of the Injured Pediatric Brain: Methods and New Lessons. |
Dennis EL, Babikian T, Giza CC, Thompson PM, Asarnow RF |
The Neuroscientist : a review journal bringing neurobiology, neurology and psychiatry |
29488436 |
Neuroscientist |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29488436 |
| The Influence of Study-Level Inference Models and Study Set Size on Coordinate-Based fMRI Meta-Analyses. |
Bossier H, Seurinck R, Kühn S, Banaschewski T, Barker GJ, Bokde ALW, Martinot JL, Lemaitre H, Paus T, Millenet S, Moerkerke B |
Frontiers in neuroscience |
29403344 |
Front Neurosci |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29403344 |
| Emotional Processing in Obsessive-Compulsive Disorder: A Systematic Review and Meta-analysis of 25 Functional Neuroimaging Studies. |
Thorsen AL, Hagland P, Radua J, Mataix-Cols D, Kvale G, Hansen B, van den Heuvel OA |
Biological psychiatry. Cognitive neuroscience and neuroimaging |
29550459 |
Biol Psychiatry Cogn Neurosci Neuroimaging |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29550459 |
| Reproducible grey matter patterns index a multivariate, global alteration of brain structure in schizophrenia and bipolar disorder. |
Schwarz E, Doan NT, Pergola G, Westlye LT, Kaufmann T, Wolfers T, Brecheisen R, Quarto T, Ing AJ, Di Carlo P, Gurholt TP, Harms RL, Noirhomme Q, Moberget T, Agartz I, Andreassen OA, Bellani M, Bertolino A, Blasi G, Brambilla P, Buitelaar JK, Cervenka S, Flyckt L, Frangou S, Franke B, Hall J, Heslenfeld DJ, Kirsch P, McIntosh AM, Nöthen MM, Papassotiropoulos A, de Quervain DJ, Rietschel M, Schumann G, Tost H, Witt SH, Zink M, Meyer-Lindenberg A, IMAGEMEND Consortium, Karolinska Schizophrenia Project (KaSP) Consortium |
Translational psychiatry |
30664633 |
Transl Psychiatry |
2019 Jan 17 |
https://www.ncbi.nlm.nih.gov/pubmed/30664633 |
| Genetic Markers of ADHD-Related Variations in Intracranial Volume. |
Klein M, Walters RK, Demontis D, Stein JL, Hibar DP, Adams HH, Bralten J, Roth Mota N, Schachar R, Sonuga-Barke E, Mattheisen M, Neale BM, Thompson PM, Medland SE, Børglum AD, Faraone SV, Arias-Vasquez A, Franke B |
The American journal of psychiatry |
30818988 |
Am J Psychiatry |
2019 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30818988 |
| Concordance of genetic variation that increases risk for anxiety disorders and posttraumatic stress disorders and that influences their underlying neurocircuitry. |
van der Merwe C, Jahanshad N, Cheung JW, Mufford M, Groenewold NA, Koen N, Ramesar R, Dalvie S, ENIGMA Consortium PGC-PTSD, Knowles JA, Hibar DP, Nievergelt CM, Koenen KC, Liberzon I, Ressler KJ, Medland SE, Morey RA, Thompson PM, Stein DJ |
Journal of affective disorders |
30699873 |
J Affect Disord |
2019 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/30699873 |
| HIPPOCAMPUS MORPHOMETRY STUDY ON PATHOLOGY-CONFIRMED ALZHEIMER'S DISEASE PATIENTS WITH SURFACE MULTIVARIATE MORPHOMETRY STATISTICS. |
Wu J, Zhang J, Shi J, Chen K, Caselli RJ, Reiman EM, Wang Y |
Proceedings. IEEE International Symposium on Biomedical Imaging |
30123414 |
Proc IEEE Int Symp Biomed Imaging |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30123414 |
| Examination of the Neural Basis of Psychoticlike Experiences in Adolescence During Reward Processing. |
Papanastasiou E, Mouchlianitis E, Joyce DW, McGuire P, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Desrivières S, Flor H, Frouin V, Garavan H, Spechler P, Gowland P, Heinz A, Ittermann B, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Papadopoulos Orfanos D, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Shergill S, IMAGEN Consortium |
JAMA psychiatry |
30073329 |
JAMA Psychiatry |
2018 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30073329 |
| Hyperbolic Wasserstein Distance for Shape Indexing. |
Shi J, Wang Y |
IEEE transactions on pattern analysis and machine intelligence |
30763239 |
IEEE Trans Pattern Anal Mach Intell |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/30763239 |
| Progressive brain atrophy in chronically infected and treated HIV+ individuals. |
Nir TM, Jahanshad N, Ching CRK, Cohen RA, Harezlak J, Schifitto G, Lam HY, Hua X, Zhong J, Zhu T, Taylor MJ, Campbell TB, Daar ES, Singer EJ, Alger JR, Thompson PM, Navia BA, HIV Neuroimaging Consortium |
Journal of neurovirology |
30767174 |
J Neurovirol |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/30767174 |
| Widespread white matter microstructural abnormalities in bipolar disorder: evidence from mega- and meta-analyses across 3033 individuals. |
Favre P, Pauling M, Stout J, Hozer F, Sarrazin S, Abé C, Alda M, Alloza C, Alonso-Lana S, Andreassen OA, Baune BT, Benedetti F, Busatto GF, Canales-Rodríguez EJ, Caseras X, Chaim-Avancini TM, Ching CRK, Dannlowski U, Deppe M, Eyler LT, Fatjo-Vilas M, Foley SF, Grotegerd D, Hajek T, Haukvik UK, Howells FM, Jahanshad N, Kugel H, Lagerberg TV, Lawrie SM, Linke JO, McIntosh A, Melloni EMT, Mitchell PB, Polosan M, Pomarol-Clotet E, Repple J, Roberts G, Roos A, Rosa PGP, Salvador R, Sarró S, Schofield PR, Serpa MH, Sim K, Stein DJ, Sussmann JE, Temmingh HS, Thompson PM, Verdolini N, Vieta E, Wessa M, Whalley HC, Zanetti MV, Leboyer M, Mangin JF, Henry C, Duchesnay E, Houenou J, ENIGMA Bipolar Disorder Working Group |
Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology |
31434102 |
Neuropsychopharmacology |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/31434102 |
| Functional Brain Hyperactivations Are Linked to an Electrophysiological Measure of Slow Interhemispheric Transfer Time after Pediatric Moderate/Severe Traumatic Brain Injury. |
Olsen A, Babikian T, Dennis EL, Ellis-Blied MU, Giza C, Marion SD, Mink R, Johnson J, Babbitt CJ, Thompson PM, Asarnow RF |
Journal of neurotrauma |
31469049 |
J Neurotrauma |
2020 Jan 15 |
https://www.ncbi.nlm.nih.gov/pubmed/31469049 |
| White matter disturbances in major depressive disorder: a coordinated analysis across 20 international cohorts in the ENIGMA MDD working group. |
van Velzen LS, Kelly S, Isaev D, Aleman A, Aftanas LI, Bauer J, Baune BT, Brak IV, Carballedo A, Connolly CG, Couvy-Duchesne B, Cullen KR, Danilenko KV, Dannlowski U, Enneking V, Filimonova E, Förster K, Frodl T, Gotlib IH, Groenewold NA, Grotegerd D, Harris MA, Hatton SN, Hawkins EL, Hickie IB, Ho TC, Jansen A, Kircher T, Klimes-Dougan B, Kochunov P, Krug A, Lagopoulos J, Lee R, Lett TA, Li M, MacMaster FP, Martin NG, McIntosh AM, McLellan Q, Meinert S, Nenadić I, Osipov E, Penninx BWJH, Portella MJ, Repple J, Roos A, Sacchet MD, Sämann PG, Schnell K, Shen X, Sim K, Stein DJ, van Tol MJ, Tomyshev AS, Tozzi L, Veer IM, Vermeiren R, Vives-Gilabert Y, Walter H, Walter M, van der Wee NJA, van der Werff SJA, Schreiner MW, Whalley HC, Wright MJ, Yang TT, Zhu A, Veltman DJ, Thompson PM, Jahanshad N, Schmaal L |
Molecular psychiatry |
31471575 |
Mol Psychiatry |
2020 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31471575 |
| Neurobehavioural characterisation and stratification of reinforcement-related behaviour. |
Jia T, Ing A, Quinlan EB, Tay N, Luo Q, Francesca B, Banaschewski T, Barker GJ, Bokde ALW, Bromberg U, Büchel C, Desrivières S, Feng J, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Nees F, Orfanos DP, Paus T, Poustka L, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, IMAGEN Consortium |
Nature human behaviour |
32313235 |
Nat Hum Behav |
2020 May |
https://www.ncbi.nlm.nih.gov/pubmed/32313235 |
| The genetic architecture of the human cerebral cortex. |
Grasby KL, Jahanshad N, Painter JN, Colodro-Conde L, Bralten J, Hibar DP, Lind PA, Pizzagalli F, Ching CRK, McMahon MAB, Shatokhina N, Zsembik LCP, Thomopoulos SI, Zhu AH, Strike LT, Agartz I, Alhusaini S, Almeida MAA, Alnæs D, Amlien IK, Andersson M, Ard T, Armstrong NJ, Ashley-Koch A, Atkins JR, Bernard M, Brouwer RM, Buimer EEL, Bülow R, Bürger C, Cannon DM, Chakravarty M, Chen Q, Cheung JW, Couvy-Duchesne B, Dale AM, Dalvie S, de Araujo TK, de Zubicaray GI, de Zwarte SMC, den Braber A, Doan NT, Dohm K, Ehrlich S, Engelbrecht HR, Erk S, Fan CC, Fedko IO, Foley SF, Ford JM, Fukunaga M, Garrett ME, Ge T, Giddaluru S, Goldman AL, Green MJ, Groenewold NA, Grotegerd D, Gurholt TP, Gutman BA, Hansell NK, Harris MA, Harrison MB, Haswell CC, Hauser M, Herms S, Heslenfeld DJ, Ho NF, Hoehn D, Hoffmann P, Holleran L, Hoogman M, Hottenga JJ, Ikeda M, Janowitz D, Jansen IE, Jia T, Jockwitz C, Kanai R, Karama S, Kasperaviciute D, Kaufmann T, Kelly S, Kikuchi M, Klein M, Knapp M, Knodt AR, Krämer B, Lam M, Lancaster TM, Lee PH, Lett TA, Lewis LB, Lopes-Cendes I, Luciano M, Macciardi F, Marquand AF, Mathias SR, Melzer TR, Milaneschi Y, Mirza-Schreiber N, Moreira JCV, Mühleisen TW, Müller-Myhsok B, Najt P, Nakahara S, Nho K, Olde Loohuis LM, Orfanos DP, Pearson JF, Pitcher TL, Pütz B, Quidé Y, Ragothaman A, Rashid FM, Reay WR, Redlich R, Reinbold CS, Repple J, Richard G, Riedel BC, Risacher SL, Rocha CS, Mota NR, Salminen L, Saremi A, Saykin AJ, Schlag F, Schmaal L, Schofield PR, Secolin R, Shapland CY, Shen L, Shin J, Shumskaya E, Sønderby IE, Sprooten E, Tansey KE, Teumer A, Thalamuthu A, Tordesillas-Gutiérrez D, Turner JA, Uhlmann A, Vallerga CL, van der Meer D, van Donkelaar MMJ, van Eijk L, van Erp TGM, van Haren NEM, van Rooij D, van Tol MJ, Veldink JH, Verhoef E, Walton E, Wang M, Wang Y, Wardlaw JM, Wen W, Westlye LT, Whelan CD, Witt SH, Wittfeld K, Wolf C, Wolfers T, Wu JQ, Yasuda CL, Zaremba D, Zhang Z, Zwiers MP, Artiges E, Assareh AA, Ayesa-Arriola R, Belger A, Brandt CL, Brown GG, Cichon S, Curran JE, Davies GE, Degenhardt F, Dennis MF, Dietsche B, Djurovic S, Doherty CP, Espiritu R, Garijo D, Gil Y, Gowland PA, Green RC, Häusler AN, Heindel W, Ho BC, Hoffmann WU, Holsboer F, Homuth G, Hosten N, Jack CR Jr, Jang M, Jansen A, Kimbrel NA, Kolskår K, Koops S, Krug A, Lim KO, Luykx JJ, Mathalon DH, Mather KA, Mattay VS, Matthews S, Mayoral Van Son J, McEwen SC, Melle I, Morris DW, Mueller BA, Nauck M, Nordvik JE, Nöthen MM, O'Leary DS, Opel N, Martinot MP, Pike GB, Preda A, Quinlan EB, Rasser PE, Ratnakar V, Reppermund S, Steen VM, Tooney PA, Torres FR, Veltman DJ, Voyvodic JT, Whelan R, White T, Yamamori H, Adams HHH, Bis JC, Debette S, Decarli C, Fornage M, Gudnason V, Hofer E, Ikram MA, Launer L, Longstreth WT, Lopez OL, Mazoyer B, Mosley TH, Roshchupkin GV, Satizabal CL, Schmidt R, Seshadri S, Yang Q, Alzheimer’s Disease Neuroimaging Initiative, CHARGE Consortium, EPIGEN Consortium, IMAGEN Consortium, SYS Consortium, Parkinson’s Progression Markers Initiative, Alvim MKM, Ames D, Anderson TJ, Andreassen OA, Arias-Vasquez A, Bastin ME, Baune BT, Beckham JC, Blangero J, Boomsma DI, Brodaty H, Brunner HG, Buckner RL, Buitelaar JK, Bustillo JR, Cahn W, Cairns MJ, Calhoun V, Carr VJ, Caseras X, Caspers S, Cavalleri GL, Cendes F, Corvin A, Crespo-Facorro B, Dalrymple-Alford JC, Dannlowski U, de Geus EJC, Deary IJ, Delanty N, Depondt C, Desrivières S, Donohoe G, Espeseth T, Fernández G, Fisher SE, Flor H, Forstner AJ, Francks C, Franke B, Glahn DC, Gollub RL, Grabe HJ, Gruber O, Håberg AK, Hariri AR, Hartman CA, Hashimoto R, Heinz A, Henskens FA, Hillegers MHJ, Hoekstra PJ, Holmes AJ, Hong LE, Hopkins WD, Hulshoff Pol HE, Jernigan TL, Jönsson EG, Kahn RS, Kennedy MA, Kircher TTJ, Kochunov P, Kwok JBJ, Le Hellard S, Loughland CM, Martin NG, Martinot JL, McDonald C, McMahon KL, Meyer-Lindenberg A, Michie PT, Morey RA, Mowry B, Nyberg L, Oosterlaan J, Ophoff RA, Pantelis C, Paus T, Pausova Z, Penninx BWJH, Polderman TJC, Posthuma D, Rietschel M, Roffman JL, Rowland LM, Sachdev PS, Sämann PG, Schall U, Schumann G, Scott RJ, Sim K, Sisodiya SM, Smoller JW, Sommer IE, St Pourcain B, Stein DJ, Toga AW, Trollor JN, Van der Wee NJA, van 't Ent D, Völzke H, Walter H, Weber B, Weinberger DR, Wright MJ, Zhou J, Stein JL, Thompson PM, Medland SE, Enhancing NeuroImaging Genetics through Meta-Analysis Consortium (ENIGMA)—Genetics working group |
Science (New York, N.Y.) |
32193296 |
Science |
2020 Mar 20 |
https://www.ncbi.nlm.nih.gov/pubmed/32193296 |
| Mega-Analysis of Gray Matter Volume in Substance Dependence: General and Substance-Specific Regional Effects. |
Mackey S, Allgaier N, Chaarani B, Spechler P, Orr C, Bunn J, Allen NB, Alia-Klein N, Batalla A, Blaine S, Brooks S, Caparelli E, Chye YY, Cousijn J, Dagher A, Desrivieres S, Feldstein-Ewing S, Foxe JJ, Goldstein RZ, Goudriaan AE, Heitzeg MM, Hester R, Hutchison K, Korucuoglu O, Li CR, London E, Lorenzetti V, Luijten M, Martin-Santos R, May A, Momenan R, Morales A, Paulus MP, Pearlson G, Rousseau ME, Salmeron BJ, Schluter R, Schmaal L, Schumann G, Sjoerds Z, Stein DJ, Stein EA, Sinha R, Solowij N, Tapert S, Uhlmann A, Veltman D, van Holst R, Whittle S, Wright MJ, Yücel M, Zhang S, Yurgelun-Todd D, Hibar DP, Jahanshad N, Evans A, Thompson PM, Glahn DC, Conrod P, Garavan H, ENIGMA Addiction Working Group |
The American journal of psychiatry |
30336705 |
Am J Psychiatry |
2019 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30336705 |
| An overlapping pattern of cerebral cortical thinning is associated with both positive symptoms and aggression in schizophrenia via the ENIGMA consortium. |
Wong TY, Radua J, Pomarol-Clotet E, Salvador R, Albajes-Eizagirre A, Solanes A, Canales-Rodriguez EJ, Guerrero-Pedraza A, Sarro S, Kircher T, Nenadic I, Krug A, Grotegerd D, Dannlowski U, Borgwardt S, Riecher-Rössler A, Schmidt A, Andreou C, Huber CG, Turner J, Calhoun V, Jiang W, Clark S, Walton E, Spalletta G, Banaj N, Piras F, Ciullo V, Vecchio D, Lebedeva I, Tomyshev AS, Kaleda V, Klushnik T, Filho GB, Zanetti MV, Serpa MH, Penteado Rosa PG, Hashimoto R, Fukunaga M, Richter A, Krämer B, Gruber O, Voineskos AN, Dickie EW, Tomecek D, Skoch A, Spaniel F, Hoschl C, Bertolino A, Bonvino A, Di Giorgio A, Holleran L, Ciufolini S, Marques TR, Dazzan P, Murray R, Lamsma J, Cahn W, van Haren N, Díaz-Zuluaga AM, Pineda-Zapata JA, Vargas C, López-Jaramillo C, van Erp TGM, Gur RC, Nickl-Jockschat T |
Psychological medicine |
31615588 |
Psychol Med |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/31615588 |
| Altered white matter microstructure in 22q11.2 deletion syndrome: a multisite diffusion tensor imaging study. |
Villalón-Reina JE, Martínez K, Qu X, Ching CRK, Nir TM, Kothapalli D, Corbin C, Sun D, Lin A, Forsyth JK, Kushan L, Vajdi A, Jalbrzikowski M, Hansen L, Jonas RK, van Amelsvoort T, Bakker G, Kates WR, Antshel KM, Fremont W, Campbell LE, McCabe KL, Daly E, Gudbrandsen M, Murphy CM, Murphy D, Craig M, Emanuel B, McDonald-McGinn DM, Vorstman JAS, Fiksinski AM, Koops S, Ruparel K, Roalf D, Gur RE, Eric Schmitt J, Simon TJ, Goodrich-Hunsaker NJ, Durdle CA, Doherty JL, Cunningham AC, van den Bree M, Linden DEJ, Owen M, Moss H, Kelly S, Donohoe G, Murphy KC, Arango C, Jahanshad N, Thompson PM, Bearden CE |
Molecular psychiatry |
31358905 |
Mol Psychiatry |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/31358905 |
| Cortical Surfaces Mediate the Relationship Between Polygenic Scores for Intelligence and General Intelligence. |
Lett TA, Vogel BO, Ripke S, Wackerhagen C, Erk S, Awasthi S, Trubetskoy V, Brandl EJ, Mohnke S, Veer IM, Nöthen MM, Rietschel M, Degenhardt F, Romanczuk-Seiferth N, Witt SH, Banaschewski T, Bokde ALW, Büchel C, Quinlan EB, Desrivières S, Flor H, Frouin V, Garavan H, Gowland P, Ittermann B, Martinot JL, Martinot MP, Nees F, Papadopoulos-Orfanos D, Paus T, Poustka L, Fröhner JH, Smolka MN, Whelan R, Schumann G, Tost H, Meyer-Lindenberg A, Heinz A, Walter H, IMAGEN consortium |
Cerebral cortex (New York, N.Y. : 1991) |
31828294 |
Cereb Cortex |
2020 Apr 14 |
https://www.ncbi.nlm.nih.gov/pubmed/31828294 |
| Leveraging allelic imbalance to refine fine-mapping for eQTL studies. |
Zou J, Hormozdiari F, Jew B, Castel SE, Lappalainen T, Ernst J, Sul JH, Eskin E |
PLoS genetics |
31834882 |
PLoS Genet |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/31834882 |
| Brain Correlates of Suicide Attempt in 18,925 Participants Across 18 International Cohorts. |
Campos AI, Thompson PM, Veltman DJ, Pozzi E, van Veltzen LS, Jahanshad N, Adams MJ, Baune BT, Berger K, Brosch K, Bülow R, Connolly CG, Dannlowski U, Davey CG, de Zubicaray GI, Dima D, Erwin-Grabner T, Evans JW, Fu CHY, Gotlib IH, Goya-Maldonado R, Grabe HJ, Grotegerd D, Harris MA, Harrison BJ, Hatton SN, Hermesdorf M, Hickie IB, Ho TC, Kircher T, Krug A, Lagopoulos J, Lemke H, McMahon K, MacMaster FP, Martin NG, McIntosh AM, Medland SE, Meinert S, Meller T, Nenadic I, Opel N, Redlich R, Reneman L, Repple J, Sacchet MD, Schmitt S, Schrantee A, Sim K, Singh A, Stein F, Strike LT, van der Wee NJA, van der Werff SJA, Völzke H, Waltemate L, Whalley HC, Wittfeld K, Wright MJ, Yang TT, Zarate CA, Schmaal L, Rentería ME, ENIGMA-MDD Working Group |
Biological psychiatry |
34172278 |
Biol Psychiatry |
2021 Aug 15 |
https://www.ncbi.nlm.nih.gov/pubmed/34172278 |
| The ENIGMA Toolbox: multiscale neural contextualization of multisite neuroimaging datasets. |
Larivière S, Paquola C, Park BY, Royer J, Wang Y, Benkarim O, Vos de Wael R, Valk SL, Thomopoulos SI, Kirschner M, Lewis LB, Evans AC, Sisodiya SM, McDonald CR, Thompson PM, Bernhardt BC |
Nature methods |
34194050 |
Nat Methods |
2021 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/34194050 |
| Brain-trait-associated variants impact cell-type-specific gene regulation during neurogenesis. |
Aygün N, Elwell AL, Liang D, Lafferty MJ, Cheek KE, Courtney KP, Mory J, Hadden-Ford E, Krupa O, de la Torre-Ubieta L, Geschwind DH, Love MI, Stein JL |
American journal of human genetics |
34416157 |
Am J Hum Genet |
2021 Sep 2 |
https://www.ncbi.nlm.nih.gov/pubmed/34416157 |
| Global urbanicity is associated with brain and behaviour in young people. |
Xu J, Liu X, Li Q, Goldblatt R, Qin W, Liu F, Chu C, Luo Q, Ing A, Guo L, Liu N, Liu H, Huang C, Cheng J, Wang M, Geng Z, Zhu W, Zhang B, Liao W, Qiu S, Zhang H, Xu X, Yu Y, Gao B, Han T, Cui G, Chen F, Xian J, Li J, Zhang J, Zuo XN, Wang D, Shen W, Miao Y, Yuan F, Lui S, Zhang X, Xu K, Zhang L, Ye Z, Banaschewski T, Barker GJ, Bokde ALW, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Artiges E, Nees F, Orfanos DP, Lemaitre H, Paus T, Poustka L, Robinson L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Winterer J, Patrick K, Calhoun V, Li MJ, Liang M, Gong P, Barker ED, Clinton N, Marquand A, Yu L, Yu C, Schumann G, CHIMGEN, IMAGEN Consortia |
Nature human behaviour |
34711977 |
Nat Hum Behav |
2022 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/34711977 |
| The Enhancing NeuroImaging Genetics through Meta-Analysis Consortium: 10 Years of Global Collaborations in Human Brain Mapping. |
Thompson PM, Jahanshad N, Schmaal L, Turner JA, Winkler AM, Thomopoulos SI, Egan GF, Kochunov P |
Human brain mapping |
34612558 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/34612558 |
| Associations of alcohol use, HIV infection, and age with brain white matter microstructure. |
Monnig MA, Gullett JM, Porges EC, Woods AJ, Monti PM, Tashima K, Jahanshad N, Thompson P, Nir T, Cohen RA |
Journal of neurovirology |
34750783 |
J Neurovirol |
2021 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/34750783 |
| Subtly altered topological asymmetry of brain structural covariance networks in autism spectrum disorder across 43 datasets from the ENIGMA consortium. |
Sha Z, van Rooij D, Anagnostou E, Arango C, Auzias G, Behrmann M, Bernhardt B, Bolte S, Busatto GF, Calderoni S, Calvo R, Daly E, Deruelle C, Duan M, Duran FLS, Durston S, Ecker C, Ehrlich S, Fair D, Fedor J, Fitzgerald J, Floris DL, Franke B, Freitag CM, Gallagher L, Glahn DC, Haar S, Hoekstra L, Jahanshad N, Jalbrzikowski M, Janssen J, King JA, Lazaro L, Luna B, McGrath J, Medland SE, Muratori F, Murphy DGM, Neufeld J, O'Hearn K, Oranje B, Parellada M, Pariente JC, Postema MC, Remnelius KL, Retico A, Rosa PGP, Rubia K, Shook D, Tammimies K, Taylor MJ, Tosetti M, Wallace GL, Zhou F, Thompson PM, Fisher SE, Buitelaar JK, Francks C |
Molecular psychiatry |
35136228 |
Mol Psychiatry |
2022 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/35136228 |
| Continually Modeling Alzheimer's Disease Progression via Deep Multi-Order Preserving Weight Consolidation. |
Zhang J, Wang Y |
Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention |
34378008 |
Med Image Comput Comput Assist Interv |
2019 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/34378008 |
| A meta-analysis of deep brain structural shape and asymmetry abnormalities in 2,833 individuals with schizophrenia compared with 3,929 healthy volunteers via the ENIGMA Consortium. |
Gutman BA, van Erp TGM, Alpert K, Ching CRK, Isaev D, Ragothaman A, Jahanshad N, Saremi A, Zavaliangos-Petropulu A, Glahn DC, Shen L, Cong S, Alnaes D, Andreassen OA, Doan NT, Westlye LT, Kochunov P, Satterthwaite TD, Wolf DH, Huang AJ, Kessler C, Weideman A, Nguyen D, Mueller BA, Faziola L, Potkin SG, Preda A, Mathalon DH, Bustillo J, Calhoun V, Ford JM, Walton E, Ehrlich S, Ducci G, Banaj N, Piras F, Piras F, Spalletta G, Canales-Rodríguez EJ, Fuentes-Claramonte P, Pomarol-Clotet E, Radua J, Salvador R, Sarró S, Dickie EW, Voineskos A, Tordesillas-Gutiérrez D, Crespo-Facorro B, Setién-Suero E, van Son JM, Borgwardt S, Schönborn-Harrisberger F, Morris D, Donohoe G, Holleran L, Cannon D, McDonald C, Corvin A, Gill M, Filho GB, Rosa PGP, Serpa MH, Zanetti MV, Lebedeva I, Kaleda V, Tomyshev A, Crow T, James A, Cervenka S, Sellgren CM, Fatouros-Bergman H, Agartz I, Howells F, Stein DJ, Temmingh H, Uhlmann A, de Zubicaray GI, McMahon KL, Wright M, Cobia D, Csernansky JG, Thompson PM, Turner JA, Wang L |
Human brain mapping |
34498337 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/34498337 |
| Brain Signatures During Reward Anticipation Predict Persistent Attention-Deficit/Hyperactivity Disorder Symptoms. |
Chen D, Jia T, Cheng W, Cao M, Banaschewski T, Barker GJ, Bokde ALW, Bromberg U, Büchel C, Desrivières S, Flor H, Grigis A, Garavan H, Gowland PA, Heinz A, Ittermann B, Martinot JL, Paillère Martinot ML, Nees F, Orfanos DP, Paus T, Poustka L, Fröhner JH, Smolka MN, Walter H, Whelan R, Robbins TW, Sahakian BJ, Schumann G, Feng J, IMAGEN Consortium |
Journal of the American Academy of Child and Adolescent Psychiatry |
34954028 |
J Am Acad Child Adolesc Psychiatry |
2022 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/34954028 |
| Examination of the association between exposure to childhood maltreatment and brain structure in young adults: a machine learning analysis. |
Price M, Albaugh M, Hahn S, Juliano AC, Fani N, Brier ZMF, Legrand AC, van Stolk-Cooke K, Chaarani B, Potter A, Peck K, Allgaier N, Banaschewski T, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Grigis A, Gowland P, Heinz A, Ittermann B, Martinot JL, Paillère ML, Artiges E, Nees F, Orfanos DP, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Garavan H |
Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology |
33637836 |
Neuropsychopharmacology |
2021 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/33637836 |
| Differential predictors for alcohol use in adolescents as a function of familial risk. |
Tschorn M, Lorenz RC, O'Reilly PF, Reichenberg A, Banaschewski T, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Ittermann B, Martinot JL, Artiges E, Nees F, Papadopoulos Orfanos D, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Heinz A, Rapp MA, IMAGEN Consortium |
Translational psychiatry |
33664233 |
Transl Psychiatry |
2021 Mar 4 |
https://www.ncbi.nlm.nih.gov/pubmed/33664233 |
| Neural network involving medial orbitofrontal cortex and dorsal periaqueductal gray regulation in human alcohol abuse. |
Jia T, Xie C, Banaschewski T, Barker GJ, Bokde ALW, Büchel C, Quinlan EB, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Nees F, Orfanos DP, Poustka L, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Robbins TW, Feng J, IMAGEN Consortium |
Science advances |
33536210 |
Sci Adv |
2021 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/33536210 |
| A Developmental Perspective on Facets of Impulsivity and Brain Activity Correlates From Adolescence to Adulthood. |
Kaiser A, Holz NE, Banaschewski T, Baumeister S, Bokde ALW, Desrivières S, Flor H, Fröhner JH, Grigis A, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Paillère Martinot ML, Artiges E, Millenet S, Orfanos DP, Poustka L, Schwarz E, Smolka MN, Walter H, Whelan R, Schumann G, Brandeis D, Nees F, IMAGEN Consortium |
Biological psychiatry. Cognitive neuroscience and neuroimaging |
35182817 |
Biol Psychiatry Cogn Neurosci Neuroimaging |
2022 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/35182817 |
| Associations of delay discounting and drinking trajectories from ages 14 to 22. |
Fröhner JH, Ripke S, Jurk S, Li SC, Banaschewski T, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Grigis A, Garavan H, Heinz A, Brühl R, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Papadopoulos Orfanos D, Poustka L, Hohmann S, Walter H, Whelan R, Schumann G, Smolka MN, IMAGEN Consortium |
Alcoholism, clinical and experimental research |
35257381 |
Alcohol Clin Exp Res |
2022 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/35257381 |
| Characterizing reward system neural trajectories from adolescence to young adulthood. |
Cao Z, Ottino-Gonzalez J, Cupertino RB, Juliano A, Chaarani B, Banaschewski T, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Grigis A, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Millenet S, Fröhner JH, Robinson L, Smolka MN, Walter H, Winterer J, Schumann G, Whelan R, Mackey S, Garavan H, IMAGEN consortiu |
Developmental cognitive neuroscience |
34894615 |
Dev Cogn Neurosci |
2021 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/34894615 |
| Inference of putative cell-type-specific imprinted regulatory elements and genes during human neuronal differentiation. |
Liang D, Aygün N, Matoba N, Ideraabdullah FY, Love MI, Stein JL |
Human molecular genetics |
35994039 |
Hum Mol Genet |
2023 Jan 13 |
https://www.ncbi.nlm.nih.gov/pubmed/35994039 |
| Brain Structure in Acutely Underweight and Partially Weight-Restored Individuals With Anorexia Nervosa: A Coordinated Analysis by the ENIGMA Eating Disorders Working Group. |
Walton E, Bernardoni F, Batury VL, Bahnsen K, Larivière S, Abbate-Daga G, Andres-Perpiña S, Bang L, Bischoff-Grethe A, Brooks SJ, Campbell IC, Cascino G, Castro-Fornieles J, Collantoni E, D'Agata F, Dahmen B, Danner UN, Favaro A, Feusner JD, Frank GKW, Friederich HC, Graner JL, Herpertz-Dahlmann B, Hess A, Horndasch S, Kaplan AS, Kaufmann LK, Kaye WH, Khalsa SS, LaBar KS, Lavagnino L, Lazaro L, Manara R, Miles AE, Milos GF, Monteleone AM, Monteleone P, Mwangi B, O'Daly O, Pariente J, Roesch J, Schmidt UH, Seitz J, Shott ME, Simon JJ, Smeets PAM, Tamnes CK, Tenconi E, Thomopoulos SI, van Elburg AA, Voineskos AN, von Polier GG, Wierenga CE, Zucker NL, Jahanshad N, King JA, Thompson PM, Berner LA, Ehrlich S |
Biological psychiatry |
36031441 |
Biol Psychiatry |
2022 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/36031441 |
| Structural Brain Correlates of Childhood Inhibited Temperament: An ENIGMA-Anxiety Mega-analysis. |
Bas-Hoogendam JM, Bernstein R, Benson BE, Buss KA, Gunther KE, Pérez-Edgar K, Salum GA, Jackowski AP, Bressan RA, Zugman A, Degnan KA, Filippi CA, Fox NA, Henderson HA, Tang A, Zeytinoglu S, Harrewijn A, Hillegers MHJ, White T, van IJzendoorn MH, Schwartz CE, Felicione JM, DeYoung KA, Shackman AJ, Smith JF, Tillman RM, van den Berg YHM, Cillessen AHN, Roelofs K, Tyborowska A, Hill SY, Battaglia M, Tettamanti M, Dougherty LR, Jin J, Klein DN, Leung HC, Avery SN, Blackford JU, Clauss JA, Hayden EP, Liu P, Vandermeer MRJ, Goldsmith HH, Planalp EM, Nichols TE, Thompson PM, Westenberg PM, van der Wee NJA, Groenewold NA, Stein DJ, Winkler AM, Pine DS, ENIGMA-Anxiety Working Group |
Journal of the American Academy of Child and Adolescent Psychiatry |
36038199 |
J Am Acad Child Adolesc Psychiatry |
2022 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/36038199 |
| Harmonizing PTSD severity scales across instruments and sites. |
Kennedy E, Dennis EL, Lindsey HM, deRoon-Cassini T, Du Plessis S, Fani N, Kaufman ML, Koen N, Larson CL, Laskowitz S, Lebois LAM, Morey RA, Newsome MR, Palermo C, Pastorek NJ, Powers A, Scheibel R, Seedat S, Seligowski A, Stein DJ, Stevens J, Sun D, Thompson P, Troyanskaya M, van Rooij SJH, Watts AA, Tomas CW, Williams W, Hillary FG, Pugh MJ, Wilde EA, Tate DF |
Neuropsychology |
35797175 |
Neuropsychology |
2023 May |
https://www.ncbi.nlm.nih.gov/pubmed/35797175 |
| Longitudinal Trajectory of the Link Between Ventral Striatum and Depression in Adolescence. |
Pan PM, Sato JR, Paillère Martinot ML, Martinot JL, Artiges E, Penttilä J, Grimmer Y, van Noort BM, Becker A, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Garavan H, Ittermann B, Nees F, Papadopoulos Orfanos D, Poustka L, Fröhner JH, Whelan R, Schumann G, Westwater ML, Grillon C, Cogo-Moreira H, Stringaris A, Ernst M, IMAGEN Consortium |
The American journal of psychiatry |
35582783 |
Am J Psychiatry |
2022 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/35582783 |
| Association between vmPFC gray matter volume and smoking initiation in adolescents. |
Xiang S, Jia T, Xie C, Cheng W, Chaarani B, Banaschewski T, Barker GJ, Bokde ALW, Büchel C, Desrivières S, Flor H, Grigis A, Gowland PA, Brühl R, Martinot JL, Martinot MP, Nees F, Orfanos DP, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Vaidya N, Walter H, Whelan R, Garavan H, Schumann G, Sahakian BJ, Robbins TW, Feng J, IMAGEN Consortium |
Nature communications |
37582920 |
Nat Commun |
2023 Aug 15 |
https://www.ncbi.nlm.nih.gov/pubmed/37582920 |
| Differential associations of adolescent versus young adult cannabis initiation with longitudinal brain change and behavior. |
Albaugh MD, Owens MM, Juliano A, Ottino-Gonzalez J, Cupertino R, Cao Z, Mackey S, Lepage C, Rioux P, Evans A, Banaschewski T, Bokde ALW, Conrod P, Desrivières S, Flor H, Grigis A, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Paus T, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Potter A, Garavan H, IMAGEN Consortium |
Molecular psychiatry |
37369720 |
Mol Psychiatry |
2023 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/37369720 |
| Assessing general versus specific liability for externalizing problems in adolescence: Concurrent and prospective prediction of symptoms of conduct disorder, ADHD, and substance use. |
Perkins ER, Joyner KJ, Foell J, Drislane LE, Brislin SJ, Frick PJ, Yancey JR, Soto EF, Ganley CM, Keel PK, Sica C, Flor H, Nees F, Banaschewski T, Bokde ALW, Desrivières S, Grigis A, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Paillère Martinot ML, Artiges E, Papadopoulos Orfanos D, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, The Imagen Consortium, Patrick CJ |
Journal of psychopathology and clinical science |
36222627 |
J Psychopathol Clin Sci |
2022 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/36222627 |
| A biologically informed polygenic score of neuronal plasticity moderates the association between cognitive aptitudes and cortical thickness in adolescents. |
Navarri X, Vosberg DE, Shin J, Richer L, Leonard G, Pike GB, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Pausova Z, Paus T |
Developmental cognitive neuroscience |
36963244 |
Dev Cogn Neurosci |
2023 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/36963244 |
| Trajectories of cortical structures associated with stress across adolescence: a bivariate latent change score approach. |
Nweze T, Banaschewski T, Ajaelu C, Okoye C, Ezenwa M, Whelan R, Papadopoulos Orfanos D, Bokde ALW, Desrivières S, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Paus T, Poustka L, Hohmann S, Millenet S, Fröhner JH, Smolka MN, Walter H, Schumann G, Hanson JL, IMAGEN Consortium |
Journal of child psychology and psychiatry, and allied disciplines |
36990655 |
J Child Psychol Psychiatry |
2023 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/36990655 |
| Structural network alterations in focal and generalized epilepsy assessed in a worldwide ENIGMA study follow axes of epilepsy risk gene expression. |
Larivière S, Royer J, Rodríguez-Cruces R, Paquola C, Caligiuri ME, Gambardella A, Concha L, Keller SS, Cendes F, Yasuda CL, Bonilha L, Gleichgerrcht E, Focke NK, Domin M, von Podewills F, Langner S, Rummel C, Wiest R, Martin P, Kotikalapudi R, O'Brien TJ, Sinclair B, Vivash L, Desmond PM, Lui E, Vaudano AE, Meletti S, Tondelli M, Alhusaini S, Doherty CP, Cavalleri GL, Delanty N, Kälviäinen R, Jackson GD, Kowalczyk M, Mascalchi M, Semmelroch M, Thomas RH, Soltanian-Zadeh H, Davoodi-Bojd E, Zhang J, Winston GP, Griffin A, Singh A, Tiwari VK, Kreilkamp BAK, Lenge M, Guerrini R, Hamandi K, Foley S, Rüber T, Weber B, Depondt C, Absil J, Carr SJA, Abela E, Richardson MP, Devinsky O, Severino M, Striano P, Tortora D, Kaestner E, Hatton SN, Vos SB, Caciagli L, Duncan JS, Whelan CD, Thompson PM, Sisodiya SM, Bernasconi A, Labate A, McDonald CR, Bernasconi N, Bernhardt BC |
Nature communications |
35896547 |
Nat Commun |
2022 Jul 27 |
https://www.ncbi.nlm.nih.gov/pubmed/35896547 |
| Relationships between physical activity, healthy eating and cortical thickness in children and young adults. |
Angelo BC, DeFendis A, Yau A, Alves JM, Thompson PM, Xiang AH, Page KA, Luo S |
Brain imaging and behavior |
36319908 |
Brain Imaging Behav |
2022 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/36319908 |
| A model-based approach to assess reproducibility for large-scale high-throughput MRI-based studies. |
Jiao Z, Lai Y, Kang J, Gong W, Ma L, Jia T, Xie C, Xiang S, Cheng W, Heinz A, Desrivières S, Schumann G, IMAGEN Consortium, Sun F, Feng J |
NeuroImage |
35398282 |
Neuroimage |
2022 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/35398282 |
| In vivo white matter microstructure in adolescents with early-onset psychosis: a multi-site mega-analysis. |
Barth C, Kelly S, Nerland S, Jahanshad N, Alloza C, Ambrogi S, Andreassen OA, Andreou D, Arango C, Baeza I, Banaj N, Bearden CE, Berk M, Bohman H, Castro-Fornieles J, Chye Y, Crespo-Facorro B, de la Serna E, Díaz-Caneja CM, Gurholt TP, Hegarty CE, James A, Janssen J, Johannessen C, Jönsson EG, Karlsgodt KH, Kochunov P, Lois NG, Lundberg M, Myhre AM, Pascual-Diaz S, Piras F, Smelror RE, Spalletta G, Stokkan TS, Sugranyes G, Suo C, Thomopoulos SI, Tordesillas-Gutiérrez D, Vecchio D, Wedervang-Resell K, Wortinger LA, Thompson PM, Agartz I |
Molecular psychiatry |
36510004 |
Mol Psychiatry |
2023 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/36510004 |
| Arc controls alcohol cue relapse by a central amygdala mechanism. |
Pagano R, Salamian A, Zielinski J, Beroun A, Nalberczak-Skóra M, Skonieczna E, Cały A, Tay N, Banaschewski T, Desrivières S, Grigis A, Garavan H, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Vaidya N, Walter H, Whelan R, IMAGEN consortium, Kalita K, Bito H, Müller CP, Schumann G, Okuno H, Radwanska K |
Molecular psychiatry |
36357670 |
Mol Psychiatry |
2023 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/36357670 |
| Source-based morphometry reveals structural brain pattern abnormalities in 22q11.2 deletion syndrome. |
Ge R, Ching CRK, Bassett AS, Kushan L, Antshel KM, van Amelsvoort T, Bakker G, Butcher NJ, Campbell LE, Chow EWC, Craig M, Crossley NA, Cunningham A, Daly E, Doherty JL, Durdle CA, Emanuel BS, Fiksinski A, Forsyth JK, Fremont W, Goodrich-Hunsaker NJ, Gudbrandsen M, Gur RE, Jalbrzikowski M, Kates WR, Lin A, Linden DEJ, McCabe KL, McDonald-McGinn D, Moss H, Murphy DG, Murphy KC, Owen MJ, Villalon-Reina JE, Repetto GM, Roalf DR, Ruparel K, Schmitt JE, Schuite-Koops S, Angkustsiri K, Sun D, Vajdi A, van den Bree M, Vorstman J, Thompson PM, Vila-Rodriguez F, Bearden CE |
Human brain mapping |
38224541 |
Hum Brain Mapp |
2024 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/38224541 |
| Multi-site benchmark classification of major depressive disorder using machine learning on cortical and subcortical measures. |
Belov V, Erwin-Grabner T, Aghajani M, Aleman A, Amod AR, Basgoze Z, Benedetti F, Besteher B, Bülow R, Ching CRK, Connolly CG, Cullen K, Davey CG, Dima D, Dols A, Evans JW, Fu CHY, Gonul AS, Gotlib IH, Grabe HJ, Groenewold N, Hamilton JP, Harrison BJ, Ho TC, Mwangi B, Jaworska N, Jahanshad N, Klimes-Dougan B, Koopowitz SM, Lancaster T, Li M, Linden DEJ, MacMaster FP, Mehler DMA, Melloni E, Mueller BA, Ojha A, Oudega ML, Penninx BWJH, Poletti S, Pomarol-Clotet E, Portella MJ, Pozzi E, Reneman L, Sacchet MD, Sämann PG, Schrantee A, Sim K, Soares JC, Stein DJ, Thomopoulos SI, Uyar-Demir A, van der Wee NJA, van der Werff SJA, Völzke H, Whittle S, Wittfeld K, Wright MJ, Wu MJ, Yang TT, Zarate C, Veltman DJ, Schmaal L, Thompson PM, Goya-Maldonado R, ENIGMA Major Depressive Disorder working group |
Scientific reports |
38212349 |
Sci Rep |
2024 Jan 11 |
https://www.ncbi.nlm.nih.gov/pubmed/38212349 |
| Genetic Heterogeneity Shapes Brain Connectivity in Psychiatry. |
Moreau CA, Harvey A, Kumar K, Huguet G, Urchs SGW, Douard EA, Schultz LM, Sharmarke H, Jizi K, Martin CO, Younis N, Tamer P, Rolland T, Martineau JL, Orban P, Silva AI, Hall J, van den Bree MBM, Owen MJ, Linden DEJ, Labbe A, Lippé S, Bearden CE, Almasy L, Glahn DC, Thompson PM, Bourgeron T, Bellec P, Jacquemont S |
Biological psychiatry |
36372570 |
Biol Psychiatry |
2023 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/36372570 |
| Anxiety onset in adolescents: a machine-learning prediction. |
Chavanne AV, Paillère Martinot ML, Penttilä J, Grimmer Y, Conrod P, Stringaris A, van Noort B, Isensee C, Becker A, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Nees F, Papadopoulos Orfanos D, Paus T, Poustka L, Hohmann S, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Martinot JL, Artiges E, IMAGEN consortium |
Molecular psychiatry |
36481929 |
Mol Psychiatry |
2023 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/36481929 |
| Genotype-specific spinal cord damage in spinocerebellar ataxias: an ENIGMA-Ataxia study. |
Rezende TJR, Adanyaguh I, Barsottini OGP, Bender B, Cendes F, Coutinho L, Deistung A, Dogan I, Durr A, Fernandez-Ruiz J, Göricke SL, Grisoli M, Hernandez-Castillo CR, Lenglet C, Mariotti C, Martinez ARM, Massuyama BK, Mochel F, Nanetti L, Nigri A, Ono SE, Öz G, Pedroso JL, Reetz K, Synofzik M, Teive H, Thomopoulos SI, Thompson PM, Timmann D, van de Warrenburg BPC, van Gaalen J, França MC Jr, Harding IH |
Journal of neurology, neurosurgery, and psychiatry |
38383154 |
J Neurol Neurosurg Psychiatry |
2024 Jun 17 |
https://www.ncbi.nlm.nih.gov/pubmed/38383154 |
| A global multicohort study to map subcortical brain development and cognition in infancy and early childhood. |
Alex AM, Aguate F, Botteron K, Buss C, Chong YS, Dager SR, Donald KA, Entringer S, Fair DA, Fortier MV, Gaab N, Gilmore JH, Girault JB, Graham AM, Groenewold NA, Hazlett H, Lin W, Meaney MJ, Piven J, Qiu A, Rasmussen JM, Roos A, Schultz RT, Skeide MA, Stein DJ, Styner M, Thompson PM, Turesky TK, Wadhwa PD, Zar HJ, Zöllei L, de Los Campos G, Knickmeyer RC, ENIGMA ORIGINs group |
Nature neuroscience |
37996530 |
Nat Neurosci |
2024 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/37996530 |
| Smaller total and subregional cerebellar volumes in posttraumatic stress disorder: a mega-analysis by the ENIGMA-PGC PTSD workgroup. |
Huggins AA, Baird CL, Briggs M, Laskowitz S, Hussain A, Fouda S, Haswell C, Sun D, Salminen LE, Jahanshad N, Thomopoulos SI, Veltman DJ, Frijling JL, Olff M, van Zuiden M, Koch SBJ, Nawjin L, Wang L, Zhu Y, Li G, Stein DJ, Ipser J, Seedat S, du Plessis S, van den Heuvel LL, Suarez-Jimenez B, Zhu X, Kim Y, He X, Zilcha-Mano S, Lazarov A, Neria Y, Stevens JS, Ressler KJ, Jovanovic T, van Rooij SJH, Fani N, Hudson AR, Mueller SC, Sierk A, Manthey A, Walter H, Daniels JK, Schmahl C, Herzog JI, Říha P, Rektor I, Lebois LAM, Kaufman ML, Olson EA, Baker JT, Rosso IM, King AP, Liberzon I, Angstadt M, Davenport ND, Sponheim SR, Disner SG, Straube T, Hofmann D, Qi R, Lu GM, Baugh LA, Forster GL, Simons RM, Simons JS, Magnotta VA, Fercho KA, Maron-Katz A, Etkin A, Cotton AS, O'Leary EN, Xie H, Wang X, Quidé Y, El-Hage W, Lissek S, Berg H, Bruce S, Cisler J, Ross M, Herringa RJ, Grupe DW, Nitschke JB, Davidson RJ, Larson CL, deRoon-Cassini TA, Tomas CW, Fitzgerald JM, Blackford JU, Olatunji BO, Kremen WS, Lyons MJ, Franz CE, Gordon EM, May G, Nelson SM, Abdallah CG, Levy I, Harpaz-Rotem I, Krystal JH, Dennis EL, Tate DF, Cifu DX, Walker WC, Wilde EA, Harding IH, Kerestes R, Thompson PM, Morey R |
Molecular psychiatry |
38195980 |
Mol Psychiatry |
2024 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/38195980 |
| Genomic Structural Equation Modeling Reveals Latent Phenotypes in the Human Cortex with Distinct Genetic Architecture. |
Morey R, Zheng Y, Sun D, Garrett M, Gasperi M, Maihofer A, Baird CL, Grasby K, Huggins A, Haswell C, Thompson P, Medland S, Gustavson D, Panizzon M, Kremen W, Nievergelt C, Ashley-Koch A, Logue L |
Research square |
37886496 |
Res Sq |
2023 Oct 3 |
https://www.ncbi.nlm.nih.gov/pubmed/37886496 |
| Data-driven biomarkers better associate with stroke motor outcomes than theory-based biomarkers. |
Olafson ER, Sperber C, Jamison KW, Bowren MD Jr, Boes AD, Andrushko JW, Borich MR, Boyd LA, Cassidy JM, Conforto AB, Cramer SC, Dula AN, Geranmayeh F, Hordacre B, Jahanshad N, Kautz SA, Tavenner BP, MacIntosh BJ, Piras F, Robertson AD, Seo NJ, Soekadar SR, Thomopoulos SI, Vecchio D, Weng TB, Westlye LT, Winstein CJ, Wittenberg GF, Wong KA, Thompson PM, Liew SL, Kuceyeski AF |
Brain communications |
39171205 |
Brain Commun |
2024 |
https://www.ncbi.nlm.nih.gov/pubmed/39171205 |
| Bridging big data in the ENIGMA consortium to combine non-equivalent cognitive measures. |
Kennedy E, Vadlamani S, Lindsey HM, Lei PW, Jo-Pugh M, Thompson PM, Tate DF, Hillary FG, Dennis EL, Wilde EA, ENIGMA Clinical Endpoints Working Group |
Scientific reports |
39414844 |
Sci Rep |
2024 Oct 16 |
https://www.ncbi.nlm.nih.gov/pubmed/39414844 |
| Brain-age prediction: Systematic evaluation of site effects, and sample age range and size. |
Yu Y, Cui HQ, Haas SS, New F, Sanford N, Yu K, Zhan D, Yang G, Gao JH, Wei D, Qiu J, Banaj N, Boomsma DI, Breier A, Brodaty H, Buckner RL, Buitelaar JK, Cannon DM, Caseras X, Clark VP, Conrod PJ, Crivello F, Crone EA, Dannlowski U, Davey CG, de Haan L, de Zubicaray GI, Di Giorgio A, Fisch L, Fisher SE, Franke B, Glahn DC, Grotegerd D, Gruber O, Gur RE, Gur RC, Hahn T, Harrison BJ, Hatton S, Hickie IB, Hulshoff Pol HE, Jamieson AJ, Jernigan TL, Jiang J, Kalnin AJ, Kang S, Kochan NA, Kraus A, Lagopoulos J, Lazaro L, McDonald BC, McDonald C, McMahon KL, Mwangi B, Piras F, Rodriguez-Cruces R, Royer J, Sachdev PS, Satterthwaite TD, Saykin AJ, Schumann G, Sevaggi P, Smoller JW, Soares JC, Spalletta G, Tamnes CK, Trollor JN, Van't Ent D, Vecchio D, Walter H, Wang Y, Weber B, Wen W, Wierenga LM, Williams SCR, Wu MJ, Zunta-Soares GB, Bernhardt B, Thompson P, Frangou S, Ge R, ENIGMA‐Lifespan Working Group |
Human brain mapping |
38949537 |
Hum Brain Mapp |
2024 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/38949537 |
| Normative modeling of brain morphometry in Clinical High-Risk for Psychosis. |
Haas SS, Ge R, Agartz I, Amminger GP, Andreassen OA, Bachman P, Baeza I, Choi S, Colibazzi T, Cropley VL, de la Fuente-Sandoval C, Ebdrup BH, Fortea A, Fusar-Poli P, Glenthøj BY, Glenthøj LB, Haut KM, Hayes RA, Heekeren K, Hooker CI, Hwang WJ, Jahanshad N, Kaess M, Kasai K, Katagiri N, Kim M, Kindler J, Koike S, Kristensen TD, Kwon JS, Lawrie SM, Lee J, Lemmers-Jansen IL, Lin A, Ma X, Mathalon DH, McGuire P, Michel C, Mizrahi R, Mizuno M, Møller P, Mora-Durán R, Nelson B, Nemoto T, Nordentoft M, Nordholm D, Omelchenko MA, Pantelis C, Pariente JC, Raghava JM, Reyes-Madrigal F, Røssberg JI, Rössler W, Salisbury DF, Sasabayashi D, Schall U, Smigielski L, Sugranyes G, Suzuki M, Takahashi T, Tamnes CK, Theodoridou A, Thomopoulos SI, Thompson PM, Tomyshev AS, Uhlhaas PJ, Værnes TG, van Amelsvoort TA, van Erp TG, Waltz JA, Wenneberg C, Westlye LT, Wood SJ, Zhou JH, Hernaus D, Jalbrzikowski M, Kahn RS, Corcoran CM, Frangou S, ENIGMA Clinical High Risk for Psychosis Working Group |
bioRxiv : the preprint server for biology |
36711551 |
bioRxiv |
2023 Jan 18 |
https://www.ncbi.nlm.nih.gov/pubmed/36711551 |
| Genomic patterns linked to gray matter alterations underlying working memory deficits in adults and adolescents with attention-deficit/hyperactivity disorder. |
Duan K, Chen J, Calhoun VD, Jiang W, Rootes-Murdy K, Schoenmacker G, Silva RF, Franke B, Buitelaar JK, Hoogman M, Oosterlaan J, Hoekstra PJ, Heslenfeld D, Hartman CA, Sprooten E, Arias-Vasquez A, Turner JA, Liu J |
Translational psychiatry |
36774336 |
Transl Psychiatry |
2023 Feb 11 |
https://www.ncbi.nlm.nih.gov/pubmed/36774336 |
| Subcortical brain alterations in carriers of genomic copy number variants. |
Kumar K, Modenato C, Moreau C, Ching CRK, Harvey A, Martin-Brevet S, Huguet G, Jean-Louis M, Douard E, Martin CO, Younis N, Tamer P, Maillard AM, Rodriguez-Herreros B, Pain A, Richetin S, 16p11.2 European Consortium, Simons Searchlight Consortium, Kushan L, Isaev D, Alpert K, Ragothaman A, Turner JA, Wang L, Ho TC, Schmaal L, Silva AI, van den Bree MBM, Linden DEJ, Owen MJ, Hall J, Lippé S, Dumas G, Draganski B, Gutman BA, Sønderby IE, Andreassen OA, Schultz L, Almasy L, Glahn DC, Bearden CE, Thompson PM, Jacquemont S |
medRxiv : the preprint server for health sciences |
36865328 |
medRxiv |
2023 Feb 22 |
https://www.ncbi.nlm.nih.gov/pubmed/36865328 |
| Regional patterns of human cortex development correlate with underlying neurobiology. |
Lotter LD, Saberi A, Hansen JY, Misic B, Paquola C, Barker GJ, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Paillère ML, Artiges E, Papadopoulos Orfanos D, Paus T, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, IMAGEN Consortium, Nees F, Banaschewski T, Eickhoff SB, Dukart J |
Nature communications |
39284858 |
Nat Commun |
2024 Sep 12 |
https://www.ncbi.nlm.nih.gov/pubmed/39284858 |
| Automatic rating of incomplete hippocampal inversions evaluated across multiple cohorts. |
Hemforth L, Couvy-Duchesne B, De Matos K, Brianceau C, Joulot M, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Paillère Martinot ML, Artiges E, Papadopoulos D, Lemaitre H, Paus T, Poustka L, Hohman S, Holz N, Fröhner JH, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Büchel C, Poline JB, Itterman B, Frouin V, Martin A, IMAGEN study group, Cury C, Colliot O |
ArXiv |
39148932 |
ArXiv |
2025 Jan 20 |
https://www.ncbi.nlm.nih.gov/pubmed/39148932 |
| Copy-number variants and polygenic risk for intelligence confer risk for autism spectrum disorder irrespective of their effects on cognitive ability. |
Schmilovich Z, Bourque VR, Douard E, Huguet G, Poulain C, Ross JP, Alipour P, Castonguay CÉ, Younis N, Jean-Louis M, Saci Z, Pausova Z, Paus T, Schuman G, Porteous D, Davies G, Redmond P, Harris SE, Deary IJ, Whalley H, Hayward C, Dion PA, Jacquemont S, Rouleau GA |
Frontiers in psychiatry |
38751416 |
Front Psychiatry |
2024 |
https://www.ncbi.nlm.nih.gov/pubmed/38751416 |
| Chronic pain is linked to a resting-state neural archetype that optimizes learning from punishments. |
Scarlatti F, Dormegny-Jeanjean L, Schefzik R, Banaschewski T, Bokde ALW, Brühl R, Desrivières S, Garavan H, Gowland P, Grigis A, Heinz A, Martinot JL, Martinot MP, Artiges E, Orfanos DP, Poustka L, Smolka MN, Hohmann S, Holz N, Vaidya N, Walter H, Whelan R, Schumann G, Nees F, Schwarz E, Löffler M, Foucher JR, Flor H, IMAGEN Consortium |
bioRxiv : the preprint server for biology |
40791559 |
bioRxiv |
2025 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/40791559 |
| Image-based meta- and mega-analysis (IBMMA): A unified framework for large-scale, multi-site, neuroimaging data analysis. |
Steele N, Huggins AA, Morey RA, Hussain A, Russell C, Suarez-Jimenez B, Pozzi E, Jameei H, Schmaal L, Veer IM, Waller L, Jahanshad N, Thomopoulos SI, Salminen LE, Olff M, Frijling JL, Veltman DJ, Koch SBJ, Nawijn L, van Zuiden M, Wang L, Zhu Y, Li G, Stein DJ, Ipser J, Neria Y, Zhu X, Ravid O, Zilcha-Mano S, Lazarov A, Stevens JS, Ressler K, Jovanovic T, van Rooij SJH, Fani N, Mueller SC, Hudson AR, Daniels JK, Sierk A, Manthey A, Walter H, van der Wee NJA, van der Werff SJA, Vermeiren RRJM, Schmahl C, Herzog JI, Rektor I, Říha P, Kaufman ML, Lebois LAM, Baker JT, Rosso IM, Olson EA, King A, Liberzon I, Angstadt M, Davenport ND, Disner SG, Sponheim SR, Straube T, Hofmann D, Lu G, Qi R, Wang X, Kunch A, Xie H, Quidé Y, El-Hage W, Lissek S, Berg H, Bruce SE, Cisler J, Ross M, Herringa RJ, Grupe DW, Nitschke JB, Davidson RJ, Larson C, deRoon-Cassini TA, Tomas CW, Fitzgerald JM, Elman J, Panizzon M, Franz CE, Lyons MJ, Kremen WS, Feola B, Blackford JU, Olatunji BO, May G, Nelson SM, Gordon EM, Abdallah CG, Lanius R, Densmore M, Théberge J, Neufeld RWJ, Thompson PM, Sun D |
NeuroImage |
41138791 |
Neuroimage |
2025 Nov 15 |
https://www.ncbi.nlm.nih.gov/pubmed/41138791 |
| Structural covariance of early visual cortex is negatively associated with PTSD symptoms: A Mega-Analysis from the ENIGMA PTSD workgroup. |
Harnett NG, Joshi S, Kumar P, Russell C, Dillon DG, Baker JT, Pizzagalli DA, Kaufman ML, Nickerson LN, Jahanshad N, Salminen LE, Thomopoulos SI, Frijling JL, Veltman DJ, Koch SBJ, Nawijn L, van Zuiden M, Zhu Y, Li G, Ipser J, Zhu X, Ravid O, Zilcha-Mano S, Lazarov A, Suarez-Jimenez B, Sun D, Hussain A, Huggins AA, Jovanovic T, van Rooij SJH, Fani N, Hudson AR, Sierk A, Manthey A, Walter H, van der Wee NJA, van der Werff SJA, Vermeiren RRJM, Říha P, Lebois LAM, Rosso IM, Olson EA, Liberzon I, Angstadt M, Disner SG, Sponheim SR, Koopowitz SM, Hofmann D, Qi R, Maron-Katz A, Kunch A, Xie H, El-Hage W, Berg H, Bruce SE, McLaughlin KA, Peverill M, Sambrook K, Ross M, Herringa RJ, Nitschke JB, Davidson RJ, deRoon-Cassini TA, Tomas CW, Fitzgerald JM, Blackford JU, Olatunji BO, Nelson SM, Gordon EM, Densmore M, Théberge J, Neufeld RWJ, Olff M, Wang L, Stein DJ, Neria Y, Stevens JS, Mueller SC, Daniels JK, Rektor I, King A, Davenport ND, Straube T, Lu G, Etkin A, Wang X, Quidé Y, Lissek S, Cisler J, Grupe DW, Larson C, Feola B, May G, Abdallah CG, Lanius R, Thompson PM, Morey RA, Ressler K |
medRxiv : the preprint server for health sciences |
40166540 |
medRxiv |
2025 Mar 19 |
https://www.ncbi.nlm.nih.gov/pubmed/40166540 |
| Brain Aging in Specific Phobia: An ENIGMA-Anxiety Mega-Analysis. |
Blake KV, Hilbert K, Ipser JC, Han LKM, Bas-Hoogendam JM, Åhs F, Bauer J, Beesdo-Baum K, Björkstrand J, Blanco-Hinojo L, Böhnlein J, Bülow R, Cano M, Cardoner N, Caseras X, Dannlowski U, Fredrikson M, Goossens L, Grabe HJ, Grotegerd D, Hahn T, Hamm A, Heinig I, Herrmann MJ, Hofmann D, Jamalabadi H, Jansen A, Kindt M, Kircher T, Klahn AL, Koelkebeck K, Krug A, Leehr EJ, Lotze M, Margraf J, Muehlhan M, Nenadić I, Peñate W, Pittig A, Plag J, Pujol J, Richter J, Ridderbusch IC, Rivero F, Schäfer A, Schäfer J, Schienle A, Schrammen E, Schruers K, Seidl E, Stark RM, Straube B, Straube T, Ströhle A, Teutenberg L, Thomopoulos SI, Ventura-Bort C, Visser RM, Völzke H, Wabnegger A, Wendt J, Wittchen HU, Wittfeld K, Yang Y, Zilverstand A, Zwanzger P, Schmaal L, Aghajani M, Pine DS, Thompson PM, van der Wee NJA, Stein DJ, Lueken U, Groenewold NA |
medRxiv : the preprint server for health sciences |
40166564 |
medRxiv |
2025 Mar 20 |
https://www.ncbi.nlm.nih.gov/pubmed/40166564 |
| A whole-brain voxel-based analysis of structural abnormalities in PTSD: An ENIGMA-PGC study. |
See CRZ, Si S, Baird CL, Haswell CC, Hussain A, Olff M, Veltman DJ, Frijling JL, van Zuiden M, Koch SBJ, Nawijn L, Wang L, Zhu Y, Li G, Neria Y, Zhu X, Suarez-Jimenez B, Zilcha-Mano S, Lazarov A, Stevens JS, Ressler K, Fani N, Jovanovic T, van Rooij SJH, Kaufman ML, Lebois LAM, Rosso IM, Olson EA, Baker JT, Sponheim SR, Disner SG, Davenport ND, Etkin A, Maron-Katz A, Stein MB, Shenton ME, Stein DJ, Ipser J, Koopowitz SM, Seedat S, du Plessis S, van den Heuvel LL, Lissek S, Berg H, Straube T, Hofman D, Baugh LA, Forster GL, Simons RM, Simons JS, Magnotta VA, Fercho KA, Wang X, Cotton AS, O'Leary EN, Xie H, Grupe DW, Nitschke JB, Davidson RJ, Larson CL, deRoon-Cassini TA, Tomas CW, Fitzgerald JM, Blackford JU, Olatunji BO, Gordon EM, May G, Nelson SM, Lanius R, Théberge J, Densmore M, Neufeld RWJ, Abdallah CG, Averill CL, Harpaz-Rotem I, Levy I, Krystal JH, Geuze E, van Lutterveld R, Dennis EL, Tate DF, Cifu DX, Walker WC, Wilde EA, van der Wee NJA, Vermeiren RRJM, van der Werff SJA, McLaughlin K, Sambrook K, Peverill M, Radua J, Salminen LE, Jahanshad N, Thomopoulos SI, James A, Valmaggia L, Thompson PM, Morey RA, Kempton MJ |
European psychiatry : the journal of the Association of European Psychiatrists |
40692500 |
Eur Psychiatry |
2025 Jul 22 |
https://www.ncbi.nlm.nih.gov/pubmed/40692500 |
| A Novel Diathesis-Stress Model of Comorbid Early Onset Psychiatric Disorders. |
Caswell CB, Hosseini-Kamkar N, Cox SM, Prada NP, Iqbal M, Nikolic M, Banaschewski T, Barker GJ, Bokde ALW, Brühl R, Desrivières S, Flor H, Garavan H, Gowland P, Grigis A, Heinz A, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Orfanos DP, Poustka L, Smolka MN, Hohmann S, Vaidya N, Walter H, Whelan R, Schumann G, Paus T, Leyton M, IMAGEN Consortium |
medRxiv : the preprint server for health sciences |
40297443 |
medRxiv |
2025 Apr 10 |
https://www.ncbi.nlm.nih.gov/pubmed/40297443 |
| Associations between epilepsy-related polygenic risk and brain morphology in childhood. |
Ngo A, Liu L, Larivière S, Kebets V, Fett S, Weber CF, Royer J, Yu E, Rodríguez-Cruces R, Zhang Z, Ooi LQR, Yeo BTT, Frauscher B, Paquola C, Caligiuri ME, Gambardella A, Concha L, Keller SS, Cendes F, Yasuda CL, Bonilha L, Gleichgerrcht E, Focke NKN, Kotikalapudi R, O'Brien TJ, Sinclair B, Vivash L, Desmond PM, Lui E, Vaudano AE, Meletti S, Kälviäinen R, Soltanian-Zadeh H, Winston GP, Tiwari VK, Kreilkamp BAK, Lenge M, Guerrini R, Hamandi K, Rüber T, Bauer T, Devinsky O, Striano P, Kaestner E, Hatton SN, Caciagli L, Kirschner M, Duncan JS, Thompson PM, ENIGMA Consortium Epilepsy Working Group, McDonald CR, Sisodiya SM, Bernasconi N, Bernasconi A, Gan-Or Z, Bernhardt BC |
Brain : a journal of neurology |
40811581 |
Brain |
2026 Feb 7 |
https://www.ncbi.nlm.nih.gov/pubmed/40811581 |
| Variation in moment-to-moment brain state engagement follows a consistent trajectory during development. |
Ye J, Tejavibulya L, Dai W, Cope LM, Hardee JE, Heitzeg MM, Lichenstein S, Yip SW, Banaschewski T, Baker GJ, Bokde ALW, Brühl R, Desrivières S, Flor H, Gowland P, Grigis A, Heinz A, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Orfanos DP, Poustka L, Hohmann S, Holz N, Baeuchl C, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Garavan H, Chaarani B, Gee DG, Baskin-Sommers A, Casey BJ, IMAGEN Consortium, Scheinost D |
Neuron |
40967219 |
Neuron |
2025 Nov 19 |
https://www.ncbi.nlm.nih.gov/pubmed/40967219 |
| A worldwide study of subcortical shape as a marker for clinical staging in Parkinson's disease. |
Laansma MA, Zhao Y, van Heese EM, Bright JK, Owens-Walton C, Al-Bachari S, Anderson TJ, Assogna F, van Balkom TD, Berendse HW, Cendes F, Dalrymple-Alford JC, Debove I, Dirkx MF, Druzgal J, Emsley HCA, Fouche JP, Garraux G, Guimarães RP, Helmich RC, Hu M, van den Heuvel OA, Isaev D, Kim HB, Klein JC, Lochner C, McMillan CT, Melzer TR, Newman B, Parkes LM, Pellicano C, Piras F, Pitcher TL, Poston KL, Rango M, Ribeiro LF, Rocha CS, Rummel C, Santos LSR, Schmidt R, Schwingenschuh P, Squarcina L, Stein DJ, Vecchio D, Vriend C, Wang J, Weintraub D, Wiest R, Yasuda CL, Jahanshad N, Thompson PM, van der Werf YD, Gutman BA |
NPJ Parkinson's disease |
39557903 |
NPJ Parkinsons Dis |
2024 Nov 19 |
https://www.ncbi.nlm.nih.gov/pubmed/39557903 |
| Hierarchical Neurocognitive Model of Externalizing and Internalizing Comorbidity. |
Jia T, Xie C, Xiang S, Zheng Y, Shen C, Li Y, Cheng W, Vaidya N, Zhang Z, Robinson L, Winterer J, Zhang Y, King S, Barker G, Bokde A, Brühl R, Kebir H, Wei D, Artiges E, Bobou M, Broulidakis M, Banaschewski T, Becker A, Buchel C, Conrod P, Fadai T, Flor H, Grigis A, Grimmer Y, Garavan H, Gowland P, Heinz A, Insensee C, Kappel V, Lemaître H, Martinot JL, Martinot ML, Noort B, Nees F, Orfanos DP, Penttilä J, Poustka L, Frohner J, Schmidt U, Sinclair J, Smolka M, Struve M, Walter H, Whelan R, Qiu J, Xie P, Sahakian B, Robbins T, Desrivières S, Schumann G, Feng J |
Research square |
39866873 |
Res Sq |
2025 Jan 10 |
https://www.ncbi.nlm.nih.gov/pubmed/39866873 |
| ASSOCIATIONS BETWEEN EPILEPSY-RELATED POLYGENIC RISK AND BRAIN MORPHOLOGY IN CHILDHOOD. |
Ngo A, Liu L, Larivière S, Kebets V, Fett S, Weber CF, Royer J, Yu E, Rodríguez-Cruces R, Zhang Z, Ooi LQR, Thomas Yeo BT, Frauscher B, Paquola C, Caligiuri ME, Gambardella A, Concha L, Keller SS, Cendes F, Yasuda CL, Bonilha L, Gleichgerrcht E, Focke NK, Kotikalapudi R, O'Brien TJ, Sinclair B, Vivash L, Desmond PM, Lui E, Vaudano AE, Meletti S, Kälviäinen R, Soltanian-Zadeh H, Winston GP, Tiwari VK, Kreilkamp BAK, Lenge M, Guerrini R, Hamandi K, Rüber T, Bauer T, Devinsky O, Striano P, Kaestner E, Hatton SN, Caciagli L, Kirschner M, Duncan JS, Thompson PM, ENIGMA Consortium Epilepsy Working Group, McDonald CR, Sisodiya SM, Bernasconi N, Bernasconi A, Gan-Or Z, Bernhardt BC |
bioRxiv : the preprint server for biology |
39868179 |
bioRxiv |
2025 Jan 17 |
https://www.ncbi.nlm.nih.gov/pubmed/39868179 |
| Structural brain abnormalities and aggressive behaviour in schizophrenia: Mega-analysis of data from 2095 patients and 2861 healthy controls via the ENIGMA consortium. |
Lamsma J, Raine A, Kia SM, Cahn W, Arold D, Banaj N, Barone A, Brosch K, Brouwer R, Brunetti A, Calhoun VD, Chew QH, Choi S, Chung YC, Ciccarelli M, Cobia D, Cocozza S, Dannlowski U, Dazzan P, de Bartolomeis A, Di Forti M, Dumais A, Edmond JT, Ehrlich S, Evermann U, Flinkenflügel K, Georgiadis F, Glahn DC, Goltermann J, Green MJ, Grotegerd D, Guerrero-Pedraza A, Ha M, Hong EL, Hulshoff Pol H, Iasevoli F, Kaiser S, Kaleda V, Karuk A, Kim M, Kircher T, Kirschner M, Kochunov P, Kwon JS, Lebedeva I, Lencer R, Marques TR, Meinert S, Murray R, Nenadić I, Nguyen D, Pearlson G, Piras F, Pomarol-Clotet E, Pontillo G, Potvin S, Preda A, Quidé Y, Rodrigue A, Rootes-Murdy K, Salvador R, Skoch A, Sim K, Spalletta G, Spaniel F, Stein F, Thomas-Odenthal F, Tikàsz A, Tomecek D, Tomyshev A, Tranfa M, Tsogt U, Turner JA, van Erp TGM, van Haren NEM, van Os J, Vecchio D, Wang L, Wroblewski A, Nickl-Jockschat T |
medRxiv : the preprint server for health sciences |
38370846 |
medRxiv |
2024 Feb 5 |
https://www.ncbi.nlm.nih.gov/pubmed/38370846 |
| Influence of insulin sensitivity on food cue evoked functional brain connectivity in children. |
Semeia L, Veit R, Zhao S, Luo S, Angelo B, Birkenfeld AL, Preissl H, Xiang AH, Kullmann S, Page KA |
bioRxiv : the preprint server for biology |
38405878 |
bioRxiv |
2024 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/38405878 |
| ENIGMA-Meditation: Worldwide Consortium for Neuroscientific Investigations of Meditation Practices. |
Ganesan S, Barrios FA, Batta I, Bauer CCC, Braver TS, Brewer JA, Brown KW, Cahn R, Cain JA, Calhoun VD, Cao L, Chetelat G, Ching CRK, Creswell JD, Dagnino PC, Davanger S, Davidson RJ, Deco G, Dutcher JM, Escrichs A, Eyler LT, Fani N, Farb NAS, Fialoke S, Fresco DM, Garg R, Garland EL, Goldin P, Hafeman DM, Jahanshad N, Kang Y, Khalsa SS, Kirlic N, Lazar SW, Lutz A, McDermott TJ, Pagnoni G, Piguet C, Prakash RS, Rahrig H, Reggente N, Saccaro LF, Sacchet MD, Siegle GJ, Tang YY, Thomopoulos SI, Thompson PM, Torske A, Treves IN, Tripathi V, Tsuchiyagaito A, Turner MD, Vago DR, Valk S, Zeidan F, Zalesky A, Turner JA, King AP |
Biological psychiatry. Cognitive neuroscience and neuroimaging |
39515581 |
Biol Psychiatry Cogn Neurosci Neuroimaging |
2025 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/39515581 |
| Accelerating Heritability, Genetic Correlation, and Genome-Wide Association Imaging Genetic Analyses in Complex Pedigrees. |
Donohue B, Gao S, Nichols TE, Adhikari BM, Ma Y, Jahanshad N, Thompson PM, McMahon FJ, Humphries EM, Burroughs W, Ament SA, Mitchell BD, Ma T, Chen S, Medland SE, Blangero J, Hong LE, Kochunov P |
Human brain mapping |
39593222 |
Hum Brain Mapp |
2024 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/39593222 |
| Lifestyle, Early-life, and Genetic Health Risk Factors Underlying the Brain Age Gap: A Mega-Analysis Across 3,934 Individuals from the ENIGMA MDD Consortium. |
Han LKM, Toenders YJ, Shen X, Milaneschi Y, Whalley HC, Sämann PG, Andlauer T, Bauer J, Berger K, Borgers T, Cole JH, Dannlowski U, Flinkenflügel K, Grabe HJ, Gruber O, Hahn T, Hamilton PJ, Hatton SN, Hermesdorf M, Hickie I, Homann J, Kircher TJ, Krämer B, Kraus A, Krug A, Lill CM, Medland SE, Meinert S, Panzenhagen A, Penninx BWJH, van der Wee NJA, van Tol MJ, Völker U, Völzke H, Weihs A, Wittfeld K, Thomopoulos SI, Jahanshad N, Thompson PM, Pozzi E, Schmaal L |
bioRxiv : the preprint server for biology |
40655020 |
bioRxiv |
2025 May 11 |
https://www.ncbi.nlm.nih.gov/pubmed/40655020 |
| Image-Based Meta- and Mega-Analysis (IBMMA): A Unified Framework for Large-Scale, Multi-Site, Neuroimaging Data Analysis. |
Steele N, Morey RA, Hussain A, Russell C, Suarez-Jimenez B, Pozzi E, Jameei H, Schmaal L, Veer IM, Waller L, Jahanshad N, Thomopoulos SI, Salminen LE, Olff M, Frijling JL, Veltman DJ, Koch SBJ, Nawijn L, van Zuiden M, Wang L, Zhu Y, Li G, Stein DJ, Ipser J, Neria Y, Zhu X, Ravid O, Zilcha-Mano S, Lazarov A, Huggins AA, Stevens JS, Ressler K, Jovanovic T, van Rooij SJH, Fani N, Mueller SC, Hudson AR, Daniels JK, Sierk A, Manthey A, Walter H, van der Wee NJA, van der Werff SJA, Vermeiren RRJM, Schmahl C, Herzog JI, Rektor I, Říha P, Kaufman ML, Lebois LAM, Baker JT, Rosso IM, Olson EA, King A, Liberzon I, Angstadt M, Davenport ND, Disner SG, Sponheim SR, Straube T, Hofmann D, Lu G, Qi R, Wang X, Kunch A, Xie H, Quidé Y, El-Hage W, Lissek S, Berg H, Bruce SE, Cisler J, Ross M, Herringa RJ, Grupe DW, Nitschke JB, Davidson RJ, Larson C, deRoon-Cassini TA, Tomas CW, Fitzgerald JM, Elman J, Panizzon M, Franz CE, Lyons MJ, Kremen WS, Feola B, Blackford JU, Olatunji BO, May G, Nelson SM, Gordon EM, Abdallah CG, Lanius R, Densmore M, Théberge J, Neufeld RWJ, Thompson PM, Sun D |
bioRxiv : the preprint server for biology |
40667083 |
bioRxiv |
2025 Jun 17 |
https://www.ncbi.nlm.nih.gov/pubmed/40667083 |
| Impact of adverse life experiences on pain, depression, anxiety, and comorbidities: a youth longitudinal sample. |
Sperandio G, Moliadze V, Attal N, Bouhassira D, Banaschewski T, Barker GJ, Bokde ALW, Desrivières S, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Paillère Martinot ML, Artiges E, Papadopoulos Orfanos D, Lemaitre H, Paus T, Poustka L, Hohmann S, Millenet S, Fröhner JH, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Flor H, Nees F |
Pain reports |
41635480 |
Pain Rep |
2026 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/41635480 |
| Regional hippocampal damage in heart failure. |
Woo MA, Ogren JA, Abouzeid CM, Macey PM, Sairafian KG, Saharan PS, Thompson PM, Fonarow GC, Hamilton MA, Harper RM, Kumar R |
European journal of heart failure |
25704495 |
Eur J Heart Fail |
2015 May |
https://www.ncbi.nlm.nih.gov/pubmed/25704495 |
| Cognitive decline preceding the onset of psychosis in patients with 22q11.2 deletion syndrome. |
Vorstman JA, Breetvelt EJ, Duijff SN, Eliez S, Schneider M, Jalbrzikowski M, Armando M, Vicari S, Shashi V, Hooper SR, Chow EW, Fung WL, Butcher NJ, Young DA, McDonald-McGinn DM, Vogels A, van Amelsvoort T, Gothelf D, Weinberger R, Weizman A, Klaassen PW, Koops S, Kates WR, Antshel KM, Simon TJ, Ousley OY, Swillen A, Gur RE, Bearden CE, Kahn RS, Bassett AS, International Consortium on Brain and Behavior in 22q11.2 Deletion Syndrome |
JAMA psychiatry |
25715178 |
JAMA Psychiatry |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/25715178 |
| Alterations in frontal white matter neurochemistry and microstructure in schizophrenia: implications for neuroinflammation. |
Chiappelli J, Hong LE, Wijtenburg SA, Du X, Gaston F, Kochunov P, Rowland LM |
Translational psychiatry |
25871973 |
Transl Psychiatry |
2015 Apr 14 |
https://www.ncbi.nlm.nih.gov/pubmed/25871973 |
| Heritability of fractional anisotropy in human white matter: a comparison of Human Connectome Project and ENIGMA-DTI data. |
Kochunov P, Jahanshad N, Marcus D, Winkler A, Sprooten E, Nichols TE, Wright SN, Hong LE, Patel B, Behrens T, Jbabdi S, Andersson J, Lenglet C, Yacoub E, Moeller S, Auerbach E, Ugurbil K, Sotiropoulos SN, Brouwer RM, Landman B, Lemaitre H, den Braber A, Zwiers MP, Ritchie S, van Hulzen K, Almasy L, Curran J, deZubicaray GI, Duggirala R, Fox P, Martin NG, McMahon KL, Mitchell B, Olvera RL, Peterson C, Starr J, Sussmann J, Wardlaw J, Wright M, Boomsma DI, Kahn R, de Geus EJ, Williamson DE, Hariri A, van 't Ent D, Bastin ME, McIntosh A, Deary IJ, Hulshoff Pol HE, Blangero J, Thompson PM, Glahn DC, Van Essen DC |
NeuroImage |
25747917 |
Neuroimage |
2015 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/25747917 |
| Cortical thickness and brain volumetric analysis in body dysmorphic disorder. |
Madsen SK, Zai A, Pirnia T, Arienzo D, Zhan L, Moody TD, Thompson PM, Feusner JD |
Psychiatry research |
25797401 |
Psychiatry Res |
2015 Apr 30 |
https://www.ncbi.nlm.nih.gov/pubmed/25797401 |
| Genetic architecture of subcortical brain regions: common and region-specific genetic contributions. |
Rentería ME, Hansell NK, Strike LT, McMahon KL, de Zubicaray GI, Hickie IB, Thompson PM, Martin NG, Medland SE, Wright MJ |
Genes, brain, and behavior |
25199620 |
Genes Brain Behav |
2014 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/25199620 |
| Brain connectivity and novel network measures for Alzheimer's disease classification. |
Prasad G, Joshi SH, Nir TM, Toga AW, Thompson PM, Alzheimer's Disease Neuroimaging Initiative (ADNI) |
Neurobiology of aging |
25264345 |
Neurobiol Aging |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25264345 |
| Structural abnormality of the corticospinal tract in major depressive disorder. |
Sacchet MD, Prasad G, Foland-Ross LC, Joshi SH, Hamilton JP, Thompson PM, Gotlib IH |
Biology of mood & anxiety disorders |
25295159 |
Biol Mood Anxiety Disord |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/25295159 |
| Abnormal hippocampal morphology in dissociative identity disorder and post-traumatic stress disorder correlates with childhood trauma and dissociative symptoms. |
Chalavi S, Vissia EM, Giesen ME, Nijenhuis ER, Draijer N, Cole JH, Dazzan P, Pariante CM, Madsen SK, Rajagopalan P, Thompson PM, Toga AW, Veltman DJ, Reinders AA |
Human brain mapping |
25545784 |
Hum Brain Mapp |
2015 May |
https://www.ncbi.nlm.nih.gov/pubmed/25545784 |
| Low plasma ApoE levels are associated with smaller hippocampal size in the Alzheimer's disease neuroimaging initiative cohort. |
Teng E, Chow N, Hwang KS, Thompson PM, Gylys KH, Cole GM, Jack CR Jr, Shaw LM, Trojanowski JQ, Soares HD, Weiner MW, Apostolova LG, Alzheimer’s Disease Neuroimaging Initiative |
Dementia and geriatric cognitive disorders |
25547651 |
Dement Geriatr Cogn Disord |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/25547651 |
| Carriers of a common variant in the dopamine transporter gene have greater dementia risk, cognitive decline, and faster ventricular expansion. |
Roussotte FF, Gutman BA, Hibar DP, Madsen SK, Narr KL, Thompson PM, Alzheimer's Disease Neuroimaging Initiative (ADNI) |
Alzheimer's & dementia : the journal of the Alzheimer's Association |
25496873 |
Alzheimers Dement |
2015 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/25496873 |
| Fast and powerful heritability inference for family-based neuroimaging studies. |
Ganjgahi H, Winkler AM, Glahn DC, Blangero J, Kochunov P, Nichols TE |
NeuroImage |
25812717 |
Neuroimage |
2015 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/25812717 |
| Genome-Wide Analyses of Working-Memory Ability: A Review. |
Knowles EE, Mathias SR, McKay DR, Sprooten E, Blangero J, Almasy L, Glahn DC |
Current behavioral neuroscience reports |
25729637 |
Curr Behav Neurosci Rep |
2014 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/25729637 |
| Novel loci affecting iron homeostasis and their effects in individuals at risk for hemochromatosis. |
Benyamin B, Esko T, Ried JS, Radhakrishnan A, Vermeulen SH, Traglia M, Gögele M, Anderson D, Broer L, Podmore C, Luan J, Kutalik Z, Sanna S, van der Meer P, Tanaka T, Wang F, Westra HJ, Franke L, Mihailov E, Milani L, Hälldin J, Winkelmann J, Meitinger T, Thiery J, Peters A, Waldenberger M, Rendon A, Jolley J, Sambrook J, Kiemeney LA, Sweep FC, Sala CF, Schwienbacher C, Pichler I, Hui J, Demirkan A, Isaacs A, Amin N, Steri M, Waeber G, Verweij N, Powell JE, Nyholt DR, Heath AC, Madden PA, Visscher PM, Wright MJ, Montgomery GW, Martin NG, Hernandez D, Bandinelli S, van der Harst P, Uda M, Vollenweider P, Scott RA, Langenberg C, Wareham NJ, InterAct Consortium, van Duijn C, Beilby J, Pramstaller PP, Hicks AA, Ouwehand WH, Oexle K, Gieger C, Metspalu A, Camaschella C, Toniolo D, Swinkels DW, Whitfield JB |
Nature communications |
25352340 |
Nat Commun |
2014 Oct 29 |
https://www.ncbi.nlm.nih.gov/pubmed/25352340 |
| Pleiotropic locus for emotion recognition and amygdala volume identified using univariate and bivariate linkage. |
Knowles EE, McKay DR, Kent JW Jr, Sprooten E, Carless MA, Curran JE, de Almeida MA, Dyer TD, Göring HH, Olvera RL, Duggirala R, Fox PT, Almasy L, Blangero J, Glahn DC |
The American journal of psychiatry |
25322361 |
Am J Psychiatry |
2015 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/25322361 |
| Higher homocysteine associated with thinner cortical gray matter in 803 participants from the Alzheimer's Disease Neuroimaging Initiative. |
Madsen SK, Rajagopalan P, Joshi SH, Toga AW, Thompson PM, Alzheimer's Disease Neuroimaging Initiative (ADNI) |
Neurobiology of aging |
25444607 |
Neurobiol Aging |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25444607 |
| Connectopathy in ageing and dementia. |
Toga AW, Thompson PM |
Brain : a journal of neurology |
25413934 |
Brain |
2014 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/25413934 |
| Altered white matter microstructure is associated with social cognition and psychotic symptoms in 22q11.2 microdeletion syndrome. |
Jalbrzikowski M, Villalon-Reina JE, Karlsgodt KH, Senturk D, Chow C, Thompson PM, Bearden CE |
Frontiers in behavioral neuroscience |
25426042 |
Front Behav Neurosci |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/25426042 |
| Transcriptomic and genetic studies identify NFAT5 as a candidate gene for cocaine dependence. |
Fernàndez-Castillo N, Cabana-Domínguez J, Soriano J, Sànchez-Mora C, Roncero C, Grau-López L, Ros-Cucurull E, Daigre C, van Donkelaar MM, Franke B, Casas M, Ribasés M, Cormand B |
Translational psychiatry |
26506053 |
Transl Psychiatry |
2015 Oct 27 |
https://www.ncbi.nlm.nih.gov/pubmed/26506053 |
| Heritability of complex white matter diffusion traits assessed in a population isolate. |
Kochunov P, Fu M, Nugent K, Wright SN, Du X, Muellerklein F, Morrissey M, Eskandar G, Shukla DK, Jahanshad N, Thompson PM, Patel B, Postolache TT, Strauss KA, Shuldiner AR, Mitchell BD, Hong LE |
Human brain mapping |
26538488 |
Hum Brain Mapp |
2016 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/26538488 |
| HERITABILITY OF BRAIN NETWORK TOPOLOGY IN 853 TWINS AND SIBLINGS. |
Zhan L, Jahanshad N, Faskowitz J, Zhu D, Prasad G, Martin NG, de Zubicaray GI, McMahon KL, Wright MJ, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413204 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413204 |
| WHITE MATTER INTEGRITY IN TRAUMATIC BRAIN INJURY: EFFECTS OF PERMISSIBLE FIBER TURNING ANGLE. |
Dennis EL, Jin Y, Kernan C, Babikian T, Mink R, Babbitt C, Johnson J, Giza CC, Asarnow RF, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413206 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413206 |
| MAPPING ABNORMAL SUBCORTICAL BRAIN MORPHOMETRY IN AN ELDERLY HIV+ COHORT. |
Wade BS, Valcour VG, Wendelken-Riegelhaupt L, Esmaeili-Firidouni P, Joshi SH, Wang Y, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413207 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413207 |
| Detecting Genetic Risk Factors for Alzheimer's Disease in Whole Genome Sequence Data via Lasso Screening. |
Yang T, Wang J, Sun Q, Hibar DP, Jahanshad N, Liu L, Wang Y, Zhan L, Thompson PM, Ye J |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413209 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413209 |
| Mapping abnormal subcortical brain morphometry in an elderly HIV+ cohort. |
Wade BS, Valcour VG, Wendelken-Riegelhaupt L, Esmaeili-Firidouni P, Joshi SH, Gutman BA, Thompson PM |
NeuroImage. Clinical |
26640768 |
Neuroimage Clin |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26640768 |
| Head Motion and Inattention/Hyperactivity Share Common Genetic Influences: Implications for fMRI Studies of ADHD. |
Couvy-Duchesne B, Ebejer JL, Gillespie NA, Duffy DL, Hickie IB, Thompson PM, Martin NG, de Zubicaray GI, McMahon KL, Medland SE, Wright MJ |
PloS one |
26745144 |
PLoS One |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/26745144 |
| Multi-Shell Hybrid Diffusion Imaging (HYDI) at 7 Tesla in TgF344-AD Transgenic Alzheimer Rats. |
Daianu M, Jacobs RE, Weitz TM, Town TC, Thompson PM |
PloS one |
26683657 |
PLoS One |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26683657 |
| ENIGMA and the individual: Predicting factors that affect the brain in 35 countries worldwide. |
Thompson PM, Andreassen OA, Arias-Vasquez A, Bearden CE, Boedhoe PS, Brouwer RM, Buckner RL, Buitelaar JK, Bulayeva KB, Cannon DM, Cohen RA, Conrod PJ, Dale AM, Deary IJ, Dennis EL, de Reus MA, Desrivieres S, Dima D, Donohoe G, Fisher SE, Fouche JP, Francks C, Frangou S, Franke B, Ganjgahi H, Garavan H, Glahn DC, Grabe HJ, Guadalupe T, Gutman BA, Hashimoto R, Hibar DP, Holland D, Hoogman M, Hulshoff Pol HE, Hosten N, Jahanshad N, Kelly S, Kochunov P, Kremen WS, Lee PH, Mackey S, Martin NG, Mazoyer B, McDonald C, Medland SE, Morey RA, Nichols TE, Paus T, Pausova Z, Schmaal L, Schumann G, Shen L, Sisodiya SM, Smit DJA, Smoller JW, Stein DJ, Stein JL, Toro R, Turner JA, van den Heuvel MP, van den Heuvel OL, van Erp TGM, van Rooij D, Veltman DJ, Walter H, Wang Y, Wardlaw JM, Whelan CD, Wright MJ, Ye J, ENIGMA Consortium |
NeuroImage |
26658930 |
Neuroimage |
2017 Jan 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26658930 |
| Heritability and reliability of automatically segmented human hippocampal formation subregions. |
Whelan CD, Hibar DP, van Velzen LS, Zannas AS, Carrillo-Roa T, McMahon K, Prasad G, Kelly S, Faskowitz J, deZubiracay G, Iglesias JE, van Erp TGM, Frodl T, Martin NG, Wright MJ, Jahanshad N, Schmaal L, Sämann PG, Thompson PM, Alzheimer's Disease Neuroimaging Initiative |
NeuroImage |
26747746 |
Neuroimage |
2016 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/26747746 |
| Leveraging Genomic Annotations and Pleiotropic Enrichment for Improved Replication Rates in Schizophrenia GWAS. |
Wang Y, Thompson WK, Schork AJ, Holland D, Chen CH, Bettella F, Desikan RS, Li W, Witoelar A, Zuber V, Devor A, Bipolar Disorder and Schizophrenia Working Group of the Psychiatric Genomics Consortium, Enhancing Neuro Imaging Genetics through Meta Analysis Consortium, Nöthen MM, Rietschel M, Chen Q, Werge T, Cichon S, Weinberger DR, Djurovic S, O'Donovan M, Visscher PM, Andreassen OA, Dale AM |
PLoS genetics |
26808560 |
PLoS Genet |
2016 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/26808560 |
| Subcortical brain volume abnormalities in 2028 individuals with schizophrenia and 2540 healthy controls via the ENIGMA consortium. |
van Erp TG, Hibar DP, Rasmussen JM, Glahn DC, Pearlson GD, Andreassen OA, Agartz I, Westlye LT, Haukvik UK, Dale AM, Melle I, Hartberg CB, Gruber O, Kraemer B, Zilles D, Donohoe G, Kelly S, McDonald C, Morris DW, Cannon DM, Corvin A, Machielsen MW, Koenders L, de Haan L, Veltman DJ, Satterthwaite TD, Wolf DH, Gur RC, Gur RE, Potkin SG, Mathalon DH, Mueller BA, Preda A, Macciardi F, Ehrlich S, Walton E, Hass J, Calhoun VD, Bockholt HJ, Sponheim SR, Shoemaker JM, van Haren NE, Hulshoff Pol HE, Ophoff RA, Kahn RS, Roiz-Santiañez R, Crespo-Facorro B, Wang L, Alpert KI, Jönsson EG, Dimitrova R, Bois C, Whalley HC, McIntosh AM, Lawrie SM, Hashimoto R, Thompson PM, Turner JA |
Molecular psychiatry |
26033243 |
Mol Psychiatry |
2016 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26033243 |
| Subcortical brain volume abnormalities in 2028 individuals with schizophrenia and 2540 healthy controls via the ENIGMA consortium. |
van Erp TG, Hibar DP, Rasmussen JM, Glahn DC, Pearlson GD, Andreassen OA, Agartz I, Westlye LT, Haukvik UK, Dale AM, Melle I, Hartberg CB, Gruber O, Kraemer B, Zilles D, Donohoe G, Kelly S, McDonald C, Morris DW, Cannon DM, Corvin A, Machielsen MW, Koenders L, de Haan L, Veltman DJ, Satterthwaite TD, Wolf DH, Gur RC, Gur RE, Potkin SG, Mathalon DH, Mueller BA, Preda A, Macciardi F, Ehrlich S, Walton E, Hass J, Calhoun VD, Bockholt HJ, Sponheim SR, Shoemaker JM, van Haren NE, Hulshoff Pol HE, Ophoff RA, Kahn RS, Roiz-Santiañez R, Crespo-Facorro B, Wang L, Alpert KI, Jönsson EG, Dimitrova R, Bois C, Whalley HC, McIntosh AM, Lawrie SM, Hashimoto R, Thompson PM, Turner JA |
Molecular psychiatry |
26283641 |
Mol Psychiatry |
2016 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26283641 |
| Perfusion shift from white to gray matter may account for processing speed deficits in schizophrenia. |
Wright SN, Hong LE, Winkler AM, Chiappelli J, Nugent K, Muellerklein F, Du X, Rowland LM, Wang DJ, Kochunov P |
Human brain mapping |
26108347 |
Hum Brain Mapp |
2015 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/26108347 |
| Rich club network analysis shows distinct patterns of disruption in frontotemporal dementia and Alzheimer's disease. |
Daianu M, Jahanshad N, Villalon-Reina JE, Mendez MF, Bartzokis G, Jimenez EE, Karve SJ, Barsuglia J, Thompson PM |
Mathematics and visualization |
26161050 |
Math Vis |
2014 |
https://www.ncbi.nlm.nih.gov/pubmed/26161050 |
| Rsu1 regulates ethanol consumption in Drosophila and humans. |
Ojelade SA, Jia T, Rodan AR, Chenyang T, Kadrmas JL, Cattrell A, Ruggeri B, Charoen P, Lemaitre H, Banaschewski T, Büchel C, Bokde AL, Carvalho F, Conrod PJ, Flor H, Frouin V, Gallinat J, Garavan H, Gowland PA, Heinz A, Ittermann B, Lathrop M, Lubbe S, Martinot JL, Paus T, Smolka MN, Spanagel R, O'Reilly PF, Laitinen J, Veijola JM, Feng J, Desrivières S, Jarvelin MR, IMAGEN Consortium, Schumann G, Rothenfluh A |
Proceedings of the National Academy of Sciences of the United States of America |
26170296 |
Proc Natl Acad Sci U S A |
2015 Jul 28 |
https://www.ncbi.nlm.nih.gov/pubmed/26170296 |
| Callosal Function in Pediatric Traumatic Brain Injury Linked to Disrupted White Matter Integrity. |
Dennis EL, Ellis MU, Marion SD, Jin Y, Moran L, Olsen A, Kernan C, Babikian T, Mink R, Babbitt C, Johnson J, Giza CC, Thompson PM, Asarnow RF |
The Journal of neuroscience : the official journal of the Society for Neuroscience |
26180196 |
J Neurosci |
2015 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26180196 |
| Cannabis use in early adolescence: Evidence of amygdala hypersensitivity to signals of threat. |
Spechler PA, Orr CA, Chaarani B, Kan KJ, Mackey S, Morton A, Snowe MP, Hudson KE, Althoff RR, Higgins ST, Cattrell A, Flor H, Nees F, Banaschewski T, Bokde ALW, Whelan R, Büchel C, Bromberg U, Conrod P, Frouin V, Papadopoulos D, Gallinat J, Heinz A, Walter H, Ittermann B, Gowland P, Paus T, Poustka L, Martinot JL, Artiges E, Smolka MN, Schumann G, Garavan H, IMAGEN Consortium |
Developmental cognitive neuroscience |
26347227 |
Dev Cogn Neurosci |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/26347227 |
| BRAIN NETWORKS. Correlated gene expression supports synchronous activity in brain networks. |
Richiardi J, Altmann A, Milazzo AC, Chang C, Chakravarty MM, Banaschewski T, Barker GJ, Bokde AL, Bromberg U, Büchel C, Conrod P, Fauth-Bühler M, Flor H, Frouin V, Gallinat J, Garavan H, Gowland P, Heinz A, Lemaître H, Mann KF, Martinot JL, Nees F, Paus T, Pausova Z, Rietschel M, Robbins TW, Smolka MN, Spanagel R, Ströhle A, Schumann G, Hawrylycz M, Poline JB, Greicius MD, IMAGEN consortium |
Science (New York, N.Y.) |
26068849 |
Science |
2015 Jun 12 |
https://www.ncbi.nlm.nih.gov/pubmed/26068849 |
| Progressive reduction in cortical thickness as psychosis develops: a multisite longitudinal neuroimaging study of youth at elevated clinical risk. |
Cannon TD, Chung Y, He G, Sun D, Jacobson A, van Erp TG, McEwen S, Addington J, Bearden CE, Cadenhead K, Cornblatt B, Mathalon DH, McGlashan T, Perkins D, Jeffries C, Seidman LJ, Tsuang M, Walker E, Woods SW, Heinssen R, North American Prodrome Longitudinal Study Consortium |
Biological psychiatry |
25034946 |
Biol Psychiatry |
2015 Jan 15 |
https://www.ncbi.nlm.nih.gov/pubmed/25034946 |
| Obesity gene NEGR1 associated with white matter integrity in healthy young adults. |
Dennis EL, Jahanshad N, Braskie MN, Warstadt NM, Hibar DP, Kohannim O, Nir TM, McMahon KL, de Zubicaray GI, Montgomery GW, Martin NG, Toga AW, Wright MJ, Thompson PM |
NeuroImage |
25072390 |
Neuroimage |
2014 Nov 15 |
https://www.ncbi.nlm.nih.gov/pubmed/25072390 |
| Skull-stripping with machine learning deformable organisms. |
Prasad G, Joshi AA, Feng A, Toga AW, Thompson PM, Terzopoulos D |
Journal of neuroscience methods |
25124851 |
J Neurosci Methods |
2014 Oct 30 |
https://www.ncbi.nlm.nih.gov/pubmed/25124851 |
| Heritability of head motion during resting state functional MRI in 462 healthy twins. |
Couvy-Duchesne B, Blokland GA, Hickie IB, Thompson PM, Martin NG, de Zubicaray GI, McMahon KL, Wright MJ |
NeuroImage |
25132021 |
Neuroimage |
2014 Nov 15 |
https://www.ncbi.nlm.nih.gov/pubmed/25132021 |
| ApoE ε4 Is Associated With Cognition, Brain Integrity, and Atrophy in HIV Over Age 60. |
Wendelken LA, Jahanshad N, Rosen HJ, Busovaca E, Allen I, Coppola G, Adams C, Rankin KP, Milanini B, Clifford K, Wojta K, Nir TM, Gutman BA, Thompson PM, Valcour V |
Journal of acquired immune deficiency syndromes (1999) |
27228100 |
J Acquir Immune Defic Syndr |
2016 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27228100 |
| Quantifying patterns of brain activity: Distinguishing unaffected siblings from participants with ADHD and healthy individuals. |
Wolfers T, van Rooij D, Oosterlaan J, Heslenfeld D, Hartman CA, Hoekstra PJ, Beckmann CF, Franke B, Buitelaar JK, Marquand AF |
NeuroImage. Clinical |
27489770 |
Neuroimage Clin |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27489770 |
| Identification of Gene Loci That Overlap Between Schizophrenia and Educational Attainment. |
Le Hellard S, Wang Y, Witoelar A, Zuber V, Bettella F, Hugdahl K, Espeseth T, Steen VM, Melle I, Desikan R, Schork AJ, Thompson WK, Dale AM, Djurovic S, Andreassen OA, Schizophrenia Working Group of the Psychiatric Genomics Consortium |
Schizophrenia bulletin |
27338279 |
Schizophr Bull |
2017 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27338279 |
| The C677T variant in MTHFR modulates associations between blood-based and cerebrospinal fluid biomarkers of neurodegeneration. |
Roussotte FF, Narr KL, Small GW, Thompson PM, Alzheimer’s Disease Neuroimaging Initiative |
Neuroreport |
27380243 |
Neuroreport |
2016 Aug 17 |
https://www.ncbi.nlm.nih.gov/pubmed/27380243 |
| Ruminative brooding is associated with salience network coherence in early pubertal youth. |
Ordaz SJ, LeMoult J, Colich NL, Prasad G, Pollak M, Popolizio M, Price A, Greicius M, Gotlib IH |
Social cognitive and affective neuroscience |
27633394 |
Soc Cogn Affect Neurosci |
2017 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27633394 |
| Electrophysiological Endophenotypes for Schizophrenia. |
Owens EM, Bachman P, Glahn DC, Bearden CE |
Harvard review of psychiatry |
26954597 |
Harv Rev Psychiatry |
2016 Mar-Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26954597 |
| Attention-deficit/hyperactivity disorder. |
Faraone SV, Asherson P, Banaschewski T, Biederman J, Buitelaar JK, Ramos-Quiroga JA, Rohde LA, Sonuga-Barke EJ, Tannock R, Franke B |
Nature reviews. Disease primers |
27189265 |
Nat Rev Dis Primers |
2015 Aug 6 |
https://www.ncbi.nlm.nih.gov/pubmed/27189265 |
| Developmentally Sensitive Interaction Effects of Genes and the Social Environment on Total and Subcortical Brain Volumes. |
Richards JS, Arias Vásquez A, Franke B, Hoekstra PJ, Heslenfeld DJ, Oosterlaan J, Faraone SV, Buitelaar JK, Hartman CA |
PloS one |
27218681 |
PLoS One |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27218681 |
| Neural basis of reward anticipation and its genetic determinants. |
Jia T, Macare C, Desrivières S, Gonzalez DA, Tao C, Ji X, Ruggeri B, Nees F, Banaschewski T, Barker GJ, Bokde AL, Bromberg U, Büchel C, Conrod PJ, Dove R, Frouin V, Gallinat J, Garavan H, Gowland PA, Heinz A, Ittermann B, Lathrop M, Lemaitre H, Martinot JL, Paus T, Pausova Z, Poline JB, Rietschel M, Robbins T, Smolka MN, Müller CP, Feng J, Rothenfluh A, Flor H, Schumann G, IMAGEN Consortium |
Proceedings of the National Academy of Sciences of the United States of America |
27001827 |
Proc Natl Acad Sci U S A |
2016 Apr 5 |
https://www.ncbi.nlm.nih.gov/pubmed/27001827 |
| Structural asymmetries of the human cerebellum in relation to cerebral cortical asymmetries and handedness. |
Kavaklioglu T, Guadalupe T, Zwiers M, Marquand AF, Onnink M, Shumskaya E, Brunner H, Fernandez G, Fisher SE, Francks C |
Brain structure & function |
27566607 |
Brain Struct Funct |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/27566607 |
| Colocalization of GWAS and eQTL Signals Detects Target Genes. |
Hormozdiari F, van de Bunt M, Segrè AV, Li X, Joo JWJ, Bilow M, Sul JH, Sankararaman S, Pasaniuc B, Eskin E |
American journal of human genetics |
27866706 |
Am J Hum Genet |
2016 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27866706 |
| Effect of tobacco smoking on frontal cortical thickness development: A longitudinal study in a mixed cohort of ADHD-affected and -unaffected youth. |
Akkermans SEA, van Rooij D, Rommelse N, Hartman CA, Hoekstra PJ, Franke B, Mennes M, Buitelaar JK |
European neuropsychopharmacology : the journal of the European College of Neuropsychopharmacology |
28764867 |
Eur Neuropsychopharmacol |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28764867 |
| Association of White Matter With Core Cognitive Deficits in Patients With Schizophrenia. |
Kochunov P, Coyle TR, Rowland LM, Jahanshad N, Thompson PM, Kelly S, Du X, Sampath H, Bruce H, Chiappelli J, Ryan M, Fisseha F, Savransky A, Adhikari B, Chen S, Paciga SA, Whelan CD, Xie Z, Hyde CL, Chen X, Schubert CR, O'Donnell P, Hong LE |
JAMA psychiatry |
28768312 |
JAMA Psychiatry |
2017 Sep 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28768312 |
| Cognitive genomics: Searching for the genetic roots of neuropsychological functioning. |
Bearden CE, Glahn DC |
Neuropsychology |
29376674 |
Neuropsychology |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/29376674 |
| Attention deficit hyperactivity disorder symptoms as antecedents of later psychotic outcomes in 22q11.2 deletion syndrome. |
Niarchou M, Chawner SJRA, Fiksinski A, Vorstman JAS, Maeder J, Schneider M, Eliez S, Armando M, Pontillo M, Vicari S, McDonald-McGinn DM, Emanuel BS, Zackai EH, Bearden CE, Shashi V, Hooper SR, Owen MJ, Gur RE, Wray NR, van den Bree MBM, Thapar A, International 22q11.2 Deletion Syndrome Brain and Behavior Consortium |
Schizophrenia research |
30093352 |
Schizophr Res |
2019 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/30093352 |
| A neurobiological pathway to smoking in adolescence: TTC12-ANKK1-DRD2 variants and reward response. |
Macare C, Ducci F, Zhang Y, Ruggeri B, Jia T, Kaakinen M, Kalsi G, Charoen P, Casoni F, Peters J, Bromberg U, Hill M, Buxton J, Blakemore A, Veijola J, Büchel C, Banaschewski T, Bokde ALW, Conrod P, Flor H, Frouin V, Gallinat J, Garavan H, Gowland PA, Heinz A, Ittermann B, Lathrop M, Martinot JL, Paus T, Desrivières S, Munafò M, Järvelin MR, Schumann G, IMAGEN Consortium |
European neuropsychopharmacology : the journal of the European College of Neuropsychopharmacology |
30104163 |
Eur Neuropsychopharmacol |
2018 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/30104163 |
| Genetic risk for schizophrenia and autism, social impairment and developmental pathways to psychosis. |
Velthorst E, Froudist-Walsh S, Stahl E, Ruderfer D, Ivanov I, Buxbaum J, iPSYCH-Broad ASD Group, the IMAGEN consortium, Banaschewski T, Bokde ALW, Dipl-Psych UB, Büchel C, Quinlan EB, Desrivières S, Flor H, Frouin V, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot MP, Artiges E, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Reichenberg A |
Translational psychiatry |
30258131 |
Transl Psychiatry |
2018 Sep 26 |
https://www.ncbi.nlm.nih.gov/pubmed/30258131 |
| Brain cortical structural differences between non-central nervous system cancer patients treated with and without chemotherapy compared to non-cancer controls: a cross-sectional pilot MRI study using clinically-indicated scans. |
Shiroishi MS, Gupta V, Bigjahan B, Cen SY, Rashid F, Hwang DH, Lerner A, Boyko OB, Liu CJ, Law M, Thompson PM, Jahanshad N |
Proceedings of SPIE--the International Society for Optical Engineering |
30034079 |
Proc SPIE Int Soc Opt Eng |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/30034079 |
| Presurgical localization and spatial shift of resting state networks in patients with brain metastases. |
Ding JR, Zhu F, Hua B, Xiong X, Wen Y, Ding Z, Thompson PM |
Brain imaging and behavior |
29611075 |
Brain Imaging Behav |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29611075 |
| Testing associations between cannabis use and subcortical volumes in two large population-based samples. |
Gillespie NA, Neale MC, Bates TC, Eyler LT, Fennema-Notestine C, Vassileva J, Lyons MJ, Prom-Wormley EC, McMahon KL, Thompson PM, de Zubicaray G, Hickie IB, McGrath JJ, Strike LT, Rentería ME, Panizzon MS, Martin NG, Franz CE, Kremen WS, Wright MJ |
Addiction (Abingdon, England) |
29691937 |
Addiction |
2018 Apr 24 |
https://www.ncbi.nlm.nih.gov/pubmed/29691937 |
| The initiation of cannabis use in adolescence is predicted by sex-specific psychosocial and neurobiological features. |
Spechler PA, Allgaier N, Chaarani B, Whelan R, Watts R, Orr C, Albaugh MD, D'Alberto N, Higgins ST, Hudson KE, Mackey S, Potter A, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Cattrell A, Conrod PJ, Desrivières S, Flor H, Frouin V, Gallinat J, Gowland P, Heinz A, Ittermann B, Martinot JL, Paillère Martinot ML, Nees F, Papadopoulos Orfanos D, Paus T, Poustka L, Smolka MN, Walter H, Schumann G, Althoff RR, Garavan H, IMAGEN Consortium |
The European journal of neuroscience |
29889330 |
Eur J Neurosci |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29889330 |
| Cortical Brain Abnormalities in 4474 Individuals With Schizophrenia and 5098 Control Subjects via the Enhancing Neuro Imaging Genetics Through Meta Analysis (ENIGMA) Consortium. |
van Erp TGM, Walton E, Hibar DP, Schmaal L, Jiang W, Glahn DC, Pearlson GD, Yao N, Fukunaga M, Hashimoto R, Okada N, Yamamori H, Bustillo JR, Clark VP, Agartz I, Mueller BA, Cahn W, de Zwarte SMC, Hulshoff Pol HE, Kahn RS, Ophoff RA, van Haren NEM, Andreassen OA, Dale AM, Doan NT, Gurholt TP, Hartberg CB, Haukvik UK, Jørgensen KN, Lagerberg TV, Melle I, Westlye LT, Gruber O, Kraemer B, Richter A, Zilles D, Calhoun VD, Crespo-Facorro B, Roiz-Santiañez R, Tordesillas-Gutiérrez D, Loughland C, Carr VJ, Catts S, Cropley VL, Fullerton JM, Green MJ, Henskens FA, Jablensky A, Lenroot RK, Mowry BJ, Michie PT, Pantelis C, Quidé Y, Schall U, Scott RJ, Cairns MJ, Seal M, Tooney PA, Rasser PE, Cooper G, Shannon Weickert C, Weickert TW, Morris DW, Hong E, Kochunov P, Beard LM, Gur RE, Gur RC, Satterthwaite TD, Wolf DH, Belger A, Brown GG, Ford JM, Macciardi F, Mathalon DH, O'Leary DS, Potkin SG, Preda A, Voyvodic J, Lim KO, McEwen S, Yang F, Tan Y, Tan S, Wang Z, Fan F, Chen J, Xiang H, Tang S, Guo H, Wan P, Wei D, Bockholt HJ, Ehrlich S, Wolthusen RPF, King MD, Shoemaker JM, Sponheim SR, De Haan L, Koenders L, Machielsen MW, van Amelsvoort T, Veltman DJ, Assogna F, Banaj N, de Rossi P, Iorio M, Piras F, Spalletta G, McKenna PJ, Pomarol-Clotet E, Salvador R, Corvin A, Donohoe G, Kelly S, Whelan CD, Dickie EW, Rotenberg D, Voineskos AN, Ciufolini S, Radua J, Dazzan P, Murray R, Reis Marques T, Simmons A, Borgwardt S, Egloff L, Harrisberger F, Riecher-Rössler A, Smieskova R, Alpert KI, Wang L, Jönsson EG, Koops S, Sommer IEC, Bertolino A, Bonvino A, Di Giorgio A, Neilson E, Mayer AR, Stephen JM, Kwon JS, Yun JY, Cannon DM, McDonald C, Lebedeva I, Tomyshev AS, Akhadov T, Kaleda V, Fatouros-Bergman H, Flyckt L, Karolinska Schizophrenia Project, Busatto GF, Rosa PGP, Serpa MH, Zanetti MV, Hoschl C, Skoch A, Spaniel F, Tomecek D, Hagenaars SP, McIntosh AM, Whalley HC, Lawrie SM, Knöchel C, Oertel-Knöchel V, Stäblein M, Howells FM, Stein DJ, Temmingh HS, Uhlmann A, Lopez-Jaramillo C, Dima D, McMahon A, Faskowitz JI, Gutman BA, Jahanshad N, Thompson PM, Turner JA |
Biological psychiatry |
29960671 |
Biol Psychiatry |
2018 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29960671 |
| MULTI-TASK SPARSE SCREENING FOR PREDICTING FUTURE CLINICAL SCORES USING LONGITUDINAL CORTICAL THICKNESS MEASURES. |
Zhang J, Tu Y, Li Q, Caselli RJ, Thompson PM, Ye J, Wang Y |
Proceedings. IEEE International Symposium on Biomedical Imaging |
30023040 |
Proc IEEE Int Symp Biomed Imaging |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30023040 |
| Structural brain abnormalities in the common epilepsies assessed in a worldwide ENIGMA study. |
Whelan CD, Altmann A, Botía JA, Jahanshad N, Hibar DP, Absil J, Alhusaini S, Alvim MKM, Auvinen P, Bartolini E, Bergo FPG, Bernardes T, Blackmon K, Braga B, Caligiuri ME, Calvo A, Carr SJ, Chen J, Chen S, Cherubini A, David P, Domin M, Foley S, França W, Haaker G, Isaev D, Keller SS, Kotikalapudi R, Kowalczyk MA, Kuzniecky R, Langner S, Lenge M, Leyden KM, Liu M, Loi RQ, Martin P, Mascalchi M, Morita ME, Pariente JC, Rodríguez-Cruces R, Rummel C, Saavalainen T, Semmelroch MK, Severino M, Thomas RH, Tondelli M, Tortora D, Vaudano AE, Vivash L, von Podewils F, Wagner J, Weber B, Yao Y, Yasuda CL, Zhang G, Bargalló N, Bender B, Bernasconi N, Bernasconi A, Bernhardt BC, Blümcke I, Carlson C, Cavalleri GL, Cendes F, Concha L, Delanty N, Depondt C, Devinsky O, Doherty CP, Focke NK, Gambardella A, Guerrini R, Hamandi K, Jackson GD, Kälviäinen R, Kochunov P, Kwan P, Labate A, McDonald CR, Meletti S, O'Brien TJ, Ourselin S, Richardson MP, Striano P, Thesen T, Wiest R, Zhang J, Vezzani A, Ryten M, Thompson PM, Sisodiya SM |
Brain : a journal of neurology |
29365066 |
Brain |
2018 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29365066 |
| Smaller subcortical volume in Parkinson patients with rapid eye movement sleep behavior disorder. |
Kamps S, van den Heuvel OA, van der Werf YD, Berendse HW, Weintraub D, Vriend C |
Brain imaging and behavior |
30155787 |
Brain Imaging Behav |
2019 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/30155787 |
| Cortical Abnormalities Associated With Pediatric and Adult Obsessive-Compulsive Disorder: Findings From the ENIGMA Obsessive-Compulsive Disorder Working Group. |
Boedhoe PSW, Schmaal L, Abe Y, Alonso P, Ameis SH, Anticevic A, Arnold PD, Batistuzzo MC, Benedetti F, Beucke JC, Bollettini I, Bose A, Brem S, Calvo A, Calvo R, Cheng Y, Cho KIK, Ciullo V, Dallaspezia S, Denys D, Feusner JD, Fitzgerald KD, Fouche JP, Fridgeirsson EA, Gruner P, Hanna GL, Hibar DP, Hoexter MQ, Hu H, Huyser C, Jahanshad N, James A, Kathmann N, Kaufmann C, Koch K, Kwon JS, Lazaro L, Lochner C, Marsh R, Martínez-Zalacaín I, Mataix-Cols D, Menchón JM, Minuzzi L, Morer A, Nakamae T, Nakao T, Narayanaswamy JC, Nishida S, Nurmi E, O'Neill J, Piacentini J, Piras F, Piras F, Reddy YCJ, Reess TJ, Sakai Y, Sato JR, Simpson HB, Soreni N, Soriano-Mas C, Spalletta G, Stevens MC, Szeszko PR, Tolin DF, van Wingen GA, Venkatasubramanian G, Walitza S, Wang Z, Yun JY, ENIGMA-OCD Working Group, Thompson PM, Stein DJ, van den Heuvel OA, ENIGMA OCD Working Group |
The American journal of psychiatry |
29377733 |
Am J Psychiatry |
2018 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29377733 |
| Subcortical brain volume differences in participants with attention deficit hyperactivity disorder in children and adults: a cross-sectional mega-analysis. |
Hoogman M, Bralten J, Hibar DP, Mennes M, Zwiers MP, Schweren LSJ, van Hulzen KJE, Medland SE, Shumskaya E, Jahanshad N, Zeeuw P, Szekely E, Sudre G, Wolfers T, Onnink AMH, Dammers JT, Mostert JC, Vives-Gilabert Y, Kohls G, Oberwelland E, Seitz J, Schulte-Rüther M, Ambrosino S, Doyle AE, Høvik MF, Dramsdahl M, Tamm L, van Erp TGM, Dale A, Schork A, Conzelmann A, Zierhut K, Baur R, McCarthy H, Yoncheva YN, Cubillo A, Chantiluke K, Mehta MA, Paloyelis Y, Hohmann S, Baumeister S, Bramati I, Mattos P, Tovar-Moll F, Douglas P, Banaschewski T, Brandeis D, Kuntsi J, Asherson P, Rubia K, Kelly C, Martino AD, Milham MP, Castellanos FX, Frodl T, Zentis M, Lesch KP, Reif A, Pauli P, Jernigan TL, Haavik J, Plessen KJ, Lundervold AJ, Hugdahl K, Seidman LJ, Biederman J, Rommelse N, Heslenfeld DJ, Hartman CA, Hoekstra PJ, Oosterlaan J, Polier GV, Konrad K, Vilarroya O, Ramos-Quiroga JA, Soliva JC, Durston S, Buitelaar JK, Faraone SV, Shaw P, Thompson PM, Franke B |
The lancet. Psychiatry |
28219628 |
Lancet Psychiatry |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/28219628 |
| Inattention and Reaction Time Variability Are Linked to Ventromedial Prefrontal Volume in Adolescents. |
Albaugh MD, Orr C, Chaarani B, Althoff RR, Allgaier N, D'Alberto N, Hudson K, Mackey S, Spechler PA, Banaschewski T, Brühl R, Bokde ALW, Bromberg U, Büchel C, Cattrell A, Conrod PJ, Desrivières S, Flor H, Frouin V, Gallinat J, Goodman R, Gowland P, Grimmer Y, Heinz A, Kappel V, Martinot JL, Paillère Martinot ML, Nees F, Orfanos DP, Penttila J, Poustka L, Paus T, Smolka MN, Struve M, Walter H, Whelan R, Schumann G, Garavan H, Potter AS |
Biological psychiatry |
28237458 |
Biol Psychiatry |
2017 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28237458 |
| Reproducibility of tract-based white matter microstructural measures using the ENIGMA-DTI protocol. |
Acheson A, Wijtenburg SA, Rowland LM, Winkler A, Mathias CW, Hong LE, Jahanshad N, Patel B, Thompson PM, McGuire SA, Sherman PM, Kochunov P, Dougherty DM |
Brain and behavior |
28239525 |
Brain Behav |
2017 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/28239525 |
| Fractional anisotropy derived from the diffusion tensor distribution function boosts power to detect Alzheimer's disease deficits. |
Nir TM, Jahanshad N, Villalon-Reina JE, Isaev D, Zavaliangos-Petropulu A, Zhan L, Leow AD, Jack CR Jr, Weiner MW, Thompson PM, Alzheimer's Diseaase Neuroimaginng Initiative (ADNI) |
Magnetic resonance in medicine |
28266059 |
Magn Reson Med |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/28266059 |
| Towards a Holistic Cortical Thickness Descriptor: Heat Kernel-Based Grey Matter Morphology Signatures. |
Wang G, Wang Y, Alzheimer's Disease Neuroimaging Initiative |
NeuroImage |
28033566 |
Neuroimage |
2017 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/28033566 |
| Brain substrates of reward processing and the μ-opioid receptor: a pathway into pain? |
Nees F, Becker S, Millenet S, Banaschewski T, Poustka L, Bokde A, Bromberg U, Büchel C, Conrod PJ, Desrivières S, Frouin V, Gallinat J, Garavan H, Heinz A, Ittermann B, Martinot JL, Papadopoulos Orfanos D, Paus T, Smolka MN, Walter H, Whelan R, Schumann G, Flor H, IMAGEN consortium |
Pain |
28092323 |
Pain |
2017 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/28092323 |
| White matter hyperintensities correlate to cognition and fiber tract integrity in older adults with HIV. |
Watson C, Busovaca E, Foley JM, Allen IE, Schwarz CG, Jahanshad N, Nir TM, Esmaeili-Firidouni P, Milanini B, Rosen H, Carmichael OT, Thompson PM, Valcour VG |
Journal of neurovirology |
28101804 |
J Neurovirol |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28101804 |
| Independent value added by diffusion MRI for prediction of cognitive function in older adults. |
Scott JA, Tosun D, Braskie MN, Maillard P, Thompson PM, Weiner M, DeCarli C, Carmichael OT, ADNI |
NeuroImage. Clinical |
28180075 |
Neuroimage Clin |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28180075 |
| Genotype-dependent epigenetic regulation of DLGAP2 in alcohol use and dependence. |
Meng W, Sjöholm LK, Kononenko O, Tay N, Zhang D, Sarkisyan D, Geske JR, Ing A, Qiu W, Watanabe H, Almamoun R, Frieling H, Bleich S, Cui D, Biernacka JM, Mayfield RD, Dang Y, Karpyak VM, Schumann G, IMAGEN Consortium, Bakalkin G, Ekström TJ, Rüegg J, Liu Y |
Molecular psychiatry |
31745236 |
Mol Psychiatry |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31745236 |
| Association of Gray Matter and Personality Development With Increased Drunkenness Frequency During Adolescence. |
Robert GH, Luo Q, Yu T, Chu C, Ing A, Jia T, Papadopoulos Orfanos D, Burke-Quinlan E, Desrivières S, Ruggeri B, Spechler P, Chaarani B, Tay N, Banaschewski T, Bokde ALW, Bromberg U, Flor H, Frouin V, Gowland P, Heinz A, Ittermann B, Martinot JL, Paillère Martinot ML, Nees F, Poustka L, Smolka MN, Vetter NC, Walter H, Whelan R, Conrod P, Barker T, Garavan H, Schumann G, IMAGEN Consortium |
JAMA psychiatry |
31851304 |
JAMA Psychiatry |
2020 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31851304 |
| Brain Imaging Genomics: Integrated Analysis and Machine Learning. |
Shen L, Thompson PM |
Proceedings of the IEEE. Institute of Electrical and Electronics Engineers |
31902950 |
Proc IEEE Inst Electr Electron Eng |
2020 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/31902950 |
| Investigating genetic links between grapheme-colour synaesthesia and neuropsychiatric traits. |
Tilot AK, Vino A, Kucera KS, Carmichael DA, van den Heuvel L, den Hoed J, Sidoroff-Dorso AV, Campbell A, Porteous DJ, St Pourcain B, van Leeuwen TM, Ward J, Rouw R, Simner J, Fisher SE |
Philosophical transactions of the Royal Society of London. Series B, Biological sciences |
31630655 |
Philos Trans R Soc Lond B Biol Sci |
2019 Dec 9 |
https://www.ncbi.nlm.nih.gov/pubmed/31630655 |
| Behavioral problems in perinatally HIV-infected young children with early antiretroviral therapy and HIV-exposed uninfected young children: prevalence and associated factors. |
Jantarabenjakul W, Chonchaiya W, Puthanakit T, Anugulruengkitt S, Theerawit T, Payapanon J, Sophonphan J, Veeravigrom M, Jahanshad N, Thompson PM, Ananworanich J, Malee K, Pancharoen C, DOET study |
AIDS care |
31635484 |
AIDS Care |
2020 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31635484 |
| Association of Copy Number Variation of the 15q11.2 BP1-BP2 Region With Cortical and Subcortical Morphology and Cognition. |
Writing Committee for the ENIGMA-CNV Working Group, van der Meer D, Sønderby IE, Kaufmann T, Walters GB, Abdellaoui A, Ames D, Amunts K, Andersson M, Armstrong NJ, Bernard M, Blackburn NB, Blangero J, Boomsma DI, Brodaty H, Brouwer RM, Bülow R, Cahn W, Calhoun VD, Caspers S, Cavalleri GL, Ching CRK, Cichon S, Ciufolini S, Corvin A, Crespo-Facorro B, Curran JE, Dalvie S, Dazzan P, de Geus EJC, de Zubicaray GI, de Zwarte SMC, Delanty N, den Braber A, Desrivieres S, Di Forti M, Doherty JL, Donohoe G, Ehrlich S, Eising E, Espeseth T, Fisher SE, Fladby T, Frei O, Frouin V, Fukunaga M, Gareau T, Glahn DC, Grabe HJ, Groenewold NA, Gústafsson Ó, Haavik J, Haberg AK, Hashimoto R, Hehir-Kwa JY, Hibar DP, Hillegers MHJ, Hoffmann P, Holleran L, Hottenga JJ, Hulshoff Pol HE, Ikeda M, Jacquemont S, Jahanshad N, Jockwitz C, Johansson S, Jönsson EG, Kikuchi M, Knowles EEM, Kwok JB, Le Hellard S, Linden DEJ, Liu J, Lundervold A, Lundervold AJ, Martin NG, Mather KA, Mathias SR, McMahon KL, McRae AF, Medland SE, Moberget T, Moreau C, Morris DW, Mühleisen TW, Murray RM, Nordvik JE, Nyberg L, Olde Loohuis LM, Ophoff RA, Owen MJ, Paus T, Pausova Z, Peralta JM, Pike B, Prieto C, Quinlan EB, Reinbold CS, Reis Marques T, Rucker JJH, Sachdev PS, Sando SB, Schofield PR, Schork AJ, Schumann G, Shin J, Shumskaya E, Silva AI, Sisodiya SM, Steen VM, Stein DJ, Strike LT, Tamnes CK, Teumer A, Thalamuthu A, Tordesillas-Gutiérrez D, Uhlmann A, Úlfarsson MÖ, van 't Ent D, van den Bree MBM, Vassos E, Wen W, Wittfeld K, Wright MJ, Zayats T, Dale AM, Djurovic S, Agartz I, Westlye LT, Stefánsson H, Stefánsson K, Thompson PM, Andreassen OA |
JAMA psychiatry |
31665216 |
JAMA Psychiatry |
2020 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31665216 |
| Identifying biological markers for improved precision medicine in psychiatry. |
Quinlan EB, Banaschewski T, Barker GJ, Bokde ALW, Bromberg U, Büchel C, Desrivières S, Flor H, Frouin V, Garavan H, Heinz A, Brühl R, Martinot JL, Paillère Martinot ML, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Smolka MN, Fröhner JH, Walter H, Whelan R, Schumann G, IMAGEN Consortium |
Molecular psychiatry |
31676814 |
Mol Psychiatry |
2020 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/31676814 |
| White Matter in Schizophrenia Treatment Resistance. |
Kochunov P, Huang J, Chen S, Li Y, Tan S, Fan F, Feng W, Wang Y, Rowland LM, Savransky A, Du X, Chiappelli J, Chen S, Jahanshad N, Thompson PM, Ryan MC, Adhikari B, Sampath H, Cui Y, Wang Z, Yang F, Tan Y, Hong LE |
The American journal of psychiatry |
31352812 |
Am J Psychiatry |
2019 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31352812 |
| No Alterations of Brain Structural Asymmetry in Major Depressive Disorder: An ENIGMA Consortium Analysis. |
de Kovel CGF, Aftanas L, Aleman A, Alexander-Bloch AF, Baune BT, Brack I, Bülow R, Busatto Filho G, Carballedo A, Connolly CG, Cullen KR, Dannlowski U, Davey CG, Dima D, Dohm K, Erwin-Grabner T, Frodl T, Fu CHY, Hall GB, Glahn DC, Godlewska B, Gotlib IH, Goya-Maldonado R, Grabe HJ, Groenewold NA, Grotegerd D, Gruber O, Harris MA, Harrison BJ, Hatton SN, Hickie IB, Ho TC, Jahanshad N, Kircher T, Krämer B, Krug A, Lagopoulos J, Leehr EJ, Li M, MacMaster FP, MacQueen G, McIntosh AM, McLellan Q, Medland SE, Mueller BA, Nenadic I, Osipov E, Papmeyer M, Portella MJ, Reneman L, Rosa PGP, Sacchet MD, Schnell K, Schrantee A, Sim K, Simulionyte E, Sindermann L, Singh A, Stein DJ, Ubani BN, Van der Wee NJA, Van der Werff SJA, Veer IM, Vives-Gilabert Y, Völzke H, Walter H, Walter M, Schreiner MW, Whalley H, Winter N, Wittfeld K, Yang TT, Yüksel D, Zaremba D, Thompson PM, Veltman DJ, Schmaal L, Francks C |
The American journal of psychiatry |
31352813 |
Am J Psychiatry |
2019 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31352813 |
| Mapping abnormal subcortical neurodevelopment in a cohort of Thai children with HIV. |
Wade BSC, Valcour VG, Puthanakit T, Saremi A, Gutman BA, Nir TM, Watson C, Aurpibul L, Kosalaraksa P, Ounchanum P, Kerr S, Dumrongpisutikul N, Visrutaratna P, Srinakarin J, Pothisri M, Narr KL, Thompson PM, Ananworanich J, Paul RH, Jahanshad N, PREDICT and Resilience Study Groups |
NeuroImage. Clinical |
31029050 |
Neuroimage Clin |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31029050 |
| Neural Correlates of Failed Inhibitory Control as an Early Marker of Disordered Eating in Adolescents. |
Bartholdy S, O'Daly OG, Campbell IC, Banaschewski T, Barker G, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Desrivières S, Flor H, Frouin V, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Paillère Martinot ML, Nees F, Orfanos DP, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Schmidt U, IMAGEN Consortium |
Biological psychiatry |
31122340 |
Biol Psychiatry |
2019 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31122340 |
| Functional network connectivity impairments and core cognitive deficits in schizophrenia. |
Adhikari BM, Hong LE, Sampath H, Chiappelli J, Jahanshad N, Thompson PM, Rowland LM, Calhoun VD, Du X, Chen S, Kochunov P |
Human brain mapping |
31313441 |
Hum Brain Mapp |
2019 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31313441 |
| Multi-Site Meta-Analysis of Morphometry. |
Jahanshad N, Faskowitz J, Roshchupkin G, Hibar DP, Gutman BA, Tustison NJ, Adams HHH, Niessen WJ, Vernooij MW, Ikram MA, Zwiers MP, Vasquez AA, Franke B, Kroll JL, Mwangi B, Soares JC, Ing A, Desrivieres S, Schumann G, Hansell NK, de Zubicaray GI, McMahon KL, Martin NG, Wright MJ, Thompson PM |
IEEE/ACM transactions on computational biology and bioinformatics |
31135366 |
IEEE/ACM Trans Comput Biol Bioinform |
2019 Sep-Oct |
https://www.ncbi.nlm.nih.gov/pubmed/31135366 |
| Substance Use Initiation, Particularly Alcohol, in Drug-Naive Adolescents: Possible Predictors and Consequences From a Large Cohort Naturalistic Study. |
Ivanov I, Parvaz MA, Velthorst E, Shaik RB, Sandin S, Gan G, Spechler P, Albaugh MD, Chaarani B, Mackey S, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Desrivières S, Flor H, Grigis A, Gowland P, Heinz A, Ittermann B, Martinot JL, Paillère Martinot ML, Artiges E, Lemaitre H, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Garavan H, IMAGEN Consortium |
Journal of the American Academy of Child and Adolescent Psychiatry |
33011213 |
J Am Acad Child Adolesc Psychiatry |
2021 May |
https://www.ncbi.nlm.nih.gov/pubmed/33011213 |
| Neuroimaging Association Scores: reliability and validity of aggregate measures of brain structural features linked to mental disorders in youth. |
Axelrud LK, Simioni AR, Pine DS, Winkler AM, Pan PM, Sato JR, Zugman A, Parker N, Picon F, Jackowski A, Hoexter MQ, IMAGEN Consortium, Barker G, Martinot JL, Martinot MLP, Satterthwaite T, Rohde LA, Milham M, Barker ED, Salum GA |
European child & adolescent psychiatry |
33030612 |
Eur Child Adolesc Psychiatry |
2021 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/33030612 |
| Association between childhood trauma and risk for obesity: a putative neurocognitive developmental pathway. |
Luo Q, Zhang L, Huang CC, Zheng Y, Kanen JW, Zhao Q, Yao Y, Quinlan EB, Jia T, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Flor H, Frouin V, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Nees F, Orfanos DP, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Sahakian BJ, Schumann G, Li F, Feng J, Desrivières S, Robbins TW, IMAGEN consortium |
BMC medicine |
33054810 |
BMC Med |
2020 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/33054810 |
| Mutations associated with neuropsychiatric conditions delineate functional brain connectivity dimensions contributing to autism and schizophrenia. |
Moreau CA, Urchs SGW, Kuldeep K, Orban P, Schramm C, Dumas G, Labbe A, Huguet G, Douard E, Quirion PO, Lin A, Kushan L, Grot S, Luck D, Mendrek A, Potvin S, Stip E, Bourgeron T, Evans AC, Bearden CE, Bellec P, Jacquemont S |
Nature communications |
33077750 |
Nat Commun |
2020 Oct 19 |
https://www.ncbi.nlm.nih.gov/pubmed/33077750 |
| The IMAGEN study: a decade of imaging genetics in adolescents. |
Mascarell Maričić L, Walter H, Rosenthal A, Ripke S, Quinlan EB, Banaschewski T, Barker GJ, Bokde ALW, Bromberg U, Büchel C, Desrivières S, Flor H, Frouin V, Garavan H, Itterman B, Martinot JL, Martinot MP, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Smolka MN, Fröhner JH, Whelan R, Kaminski J, Schumann G, Heinz A, IMAGEN consortium |
Molecular psychiatry |
32601453 |
Mol Psychiatry |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/32601453 |
| Longitudinal associations between amygdala reactivity and cannabis use in a large sample of adolescents. |
Spechler PA, Chaarani B, Orr C, Albaugh MD, Fontaine NR, Higgins ST, Banaschewski T, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Grigis A, Gowland P, Heinz A, Ittermann B, Artiges E, Martinot MP, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Garavan H |
Psychopharmacology |
32772145 |
Psychopharmacology (Berl) |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/32772145 |
| Linked patterns of biological and environmental covariation with brain structure in adolescence: a population-based longitudinal study. |
Modabbernia A, Reichenberg A, Ing A, Moser DA, Doucet GE, Artiges E, Banaschewski T, Barker GJ, Becker A, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Fröhner JH, Garavan H, Gowland P, Grigis A, Grimmer Y, Heinz A, Insensee C, Ittermann B, Martinot JL, Martinot MP, Millenet S, Nees F, Orfanos DP, Paus T, Penttilä J, Poustka L, Smolka MN, Stringaris A, van Noort BM, Walter H, Whelan R, Schumann G, Frangou S, IMAGEN Consortium |
Molecular psychiatry |
32444868 |
Mol Psychiatry |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32444868 |
| ENIGMA MDD: seven years of global neuroimaging studies of major depression through worldwide data sharing. |
Schmaal L, Pozzi E, C Ho T, van Velzen LS, Veer IM, Opel N, Van Someren EJW, Han LKM, Aftanas L, Aleman A, Baune BT, Berger K, Blanken TF, Capitão L, Couvy-Duchesne B, R Cullen K, Dannlowski U, Davey C, Erwin-Grabner T, Evans J, Frodl T, Fu CHY, Godlewska B, Gotlib IH, Goya-Maldonado R, Grabe HJ, Groenewold NA, Grotegerd D, Gruber O, Gutman BA, Hall GB, Harrison BJ, Hatton SN, Hermesdorf M, Hickie IB, Hilland E, Irungu B, Jonassen R, Kelly S, Kircher T, Klimes-Dougan B, Krug A, Landrø NI, Lagopoulos J, Leerssen J, Li M, Linden DEJ, MacMaster FP, M McIntosh A, Mehler DMA, Nenadić I, Penninx BWJH, Portella MJ, Reneman L, Rentería ME, Sacchet MD, G Sämann P, Schrantee A, Sim K, Soares JC, Stein DJ, Tozzi L, van Der Wee NJA, van Tol MJ, Vermeiren R, Vives-Gilabert Y, Walter H, Walter M, Whalley HC, Wittfeld K, Whittle S, Wright MJ, Yang TT, Zarate C Jr, Thomopoulos SI, Jahanshad N, Thompson PM, Veltman DJ |
Translational psychiatry |
32472038 |
Transl Psychiatry |
2020 May 29 |
https://www.ncbi.nlm.nih.gov/pubmed/32472038 |
| Cross-sectional and longitudinal associations of family income-to-needs ratio with cortical and subcortical brain volume in adolescent boys and girls. |
King LS, Dennis EL, Humphreys KL, Thompson PM, Gotlib IH |
Developmental cognitive neuroscience |
32479375 |
Dev Cogn Neurosci |
2020 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/32479375 |
| The empirical replicability of task-based fMRI as a function of sample size. |
Bossier H, Roels SP, Seurinck R, Banaschewski T, Barker GJ, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Artiges E, Nees F, Orfanos DP, Poustka L, Fröhner Dipl-Psych JH, Smolka MN, Walter H, Whelan R, Schumann G, Moerkerke B, IMAGEN Consortium |
NeuroImage |
32036019 |
Neuroimage |
2020 May 15 |
https://www.ncbi.nlm.nih.gov/pubmed/32036019 |
| Ten years of enhancing neuro-imaging genetics through meta-analysis: An overview from the ENIGMA Genetics Working Group. |
Medland SE, Grasby KL, Jahanshad N, Painter JN, Colodro-Conde L, Bralten J, Hibar DP, Lind PA, Pizzagalli F, Thomopoulos SI, Stein JL, Franke B, Martin NG, Thompson PM, ENIGMA Genetics Working Group |
Human brain mapping |
33300665 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33300665 |
| Prefrontal cortical thinning links to negative symptoms in schizophrenia via the ENIGMA consortium. |
Walton E, Hibar DP, van Erp TGM, Potkin SG, Roiz-Santiañez R, Crespo-Facorro B, Suarez-Pinilla P, van Haren NEM, de Zwarte SMC, Kahn RS, Cahn W, Doan NT, Jørgensen KN, Gurholt TP, Agartz I, Andreassen OA, Westlye LT, Melle I, Berg AO, Morch-Johnsen L, Færden A, Flyckt L, Fatouros-Bergman H, Karolinska Schizophrenia Project Consortium (KaSP), Jönsson EG, Hashimoto R, Yamamori H, Fukunaga M, Jahanshad N, De Rossi P, Piras F, Banaj N, Spalletta G, Gur RE, Gur RC, Wolf DH, Satterthwaite TD, Beard LM, Sommer IE, Koops S, Gruber O, Richter A, Krämer B, Kelly S, Donohoe G, McDonald C, Cannon DM, Corvin A, Gill M, Di Giorgio A, Bertolino A, Lawrie S, Nickson T, Whalley HC, Neilson E, Calhoun VD, Thompson PM, Turner JA, Ehrlich S |
Psychological medicine |
28545597 |
Psychol Med |
2018 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/28545597 |
| Predicting attention-deficit/hyperactivity disorder severity from psychosocial stress and stress-response genes: a random forest regression approach. |
van der Meer D, Hoekstra PJ, van Donkelaar M, Bralten J, Oosterlaan J, Heslenfeld D, Faraone SV, Franke B, Buitelaar JK, Hartman CA |
Translational psychiatry |
28585928 |
Transl Psychiatry |
2017 Jun 6 |
https://www.ncbi.nlm.nih.gov/pubmed/28585928 |
| Female-specific association of NOS1 genotype with white matter microstructure in ADHD patients and controls. |
van Ewijk H, Bralten J, van Duin EDA, Hakobjan M, Buitelaar JK, Heslenfeld DJ, Hoekstra PJ, Hartman C, Hoogman M, Oosterlaan J, Franke B |
Journal of child psychology and psychiatry, and allied disciplines |
28589541 |
J Child Psychol Psychiatry |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28589541 |
| The C677T variant in MTHFR modulates associations between brain integrity, mood, and cognitive functioning in old age. |
Roussotte FF, Hua X, Narr KL, Small GW, Thompson PM, Alzheimer's Disease Neuroimaging Initiative |
Biological psychiatry. Cognitive neuroscience and neuroimaging |
28435933 |
Biol Psychiatry Cogn Neurosci Neuroimaging |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/28435933 |
| Heritability of Hippocampal Formation Sub-region Volumes. |
Greenspan KS, Arakelian CR, van Erp TGM |
Journal of neurology and neuroscience |
28503392 |
J Neurol Neurosci |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/28503392 |
| Methylation of OPRL1 mediates the effect of psychosocial stress on binge drinking in adolescents. |
Ruggeri B, Macare C, Stopponi S, Jia T, Carvalho FM, Robert G, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Cattrell A, Conrod PJ, Desrivières S, Flor H, Frouin V, Gallinat J, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Nees F, Papadopoulos-Orfanos D, Paus T, Poustka L, Smolka MN, Vetter NC, Walter H, Whelan R, Sommer WH, Bakalkin G, Ciccocioppo R, Schumann G, IMAGEN consortium |
Journal of child psychology and psychiatry, and allied disciplines |
29197086 |
J Child Psychol Psychiatry |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29197086 |
| MAPPING AGE EFFECTS ALONG FIBER TRACTS IN YOUNG ADULTS. |
Dennis EL, Rashid F, Faskowitz J, Jin Y, McMahon KL, de Zubicaray GI, Martin NG, Hickie IB, Wright MJ, Jahanshad N, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
29201279 |
Proc IEEE Int Symp Biomed Imaging |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29201279 |
| Smaller Hippocampal Volume in Posttraumatic Stress Disorder: A Multisite ENIGMA-PGC Study: Subcortical Volumetry Results From Posttraumatic Stress Disorder Consortia. |
Logue MW, van Rooij SJH, Dennis EL, Davis SL, Hayes JP, Stevens JS, Densmore M, Haswell CC, Ipser J, Koch SBJ, Korgaonkar M, Lebois LAM, Peverill M, Baker JT, Boedhoe PSW, Frijling JL, Gruber SA, Harpaz-Rotem I, Jahanshad N, Koopowitz S, Levy I, Nawijn L, O'Connor L, Olff M, Salat DH, Sheridan MA, Spielberg JM, van Zuiden M, Winternitz SR, Wolff JD, Wolf EJ, Wang X, Wrocklage K, Abdallah CG, Bryant RA, Geuze E, Jovanovic T, Kaufman ML, King AP, Krystal JH, Lagopoulos J, Bennett M, Lanius R, Liberzon I, McGlinchey RE, McLaughlin KA, Milberg WP, Miller MW, Ressler KJ, Veltman DJ, Stein DJ, Thomaes K, Thompson PM, Morey RA |
Biological psychiatry |
29217296 |
Biol Psychiatry |
2018 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29217296 |
| Diffusion MRI in pediatric brain injury. |
Dennis EL, Babikian T, Giza CC, Thompson PM, Asarnow RF |
Child's nervous system : ChNS : official journal of the International Society for Pediatric Neurosurgery |
29149383 |
Childs Nerv Syst |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/29149383 |
| Investigating the differential contributions of sex and brain size to gray matter asymmetry. |
Kurth F, Thompson PM, Luders E |
Cortex; a journal devoted to the study of the nervous system and behavior |
29287244 |
Cortex |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29287244 |
| Variation in a range of mTOR-related genes associates with intracranial volume and intellectual disability. |
Reijnders MRF, Kousi M, van Woerden GM, Klein M, Bralten J, Mancini GMS, van Essen T, Proietti-Onori M, Smeets EEJ, van Gastel M, Stegmann APA, Stevens SJC, Lelieveld SH, Gilissen C, Pfundt R, Tan PL, Kleefstra T, Franke B, Elgersma Y, Katsanis N, Brunner HG |
Nature communications |
29051493 |
Nat Commun |
2017 Oct 20 |
https://www.ncbi.nlm.nih.gov/pubmed/29051493 |
| Functional Neuroimaging Predictors of Self-Reported Psychotic Symptoms in Adolescents. |
Bourque J, Spechler PA, Potvin S, Whelan R, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Desrivières S, Flor H, Frouin V, Gowland P, Heinz A, Ittermann B, Martinot JL, Paillère-Martinot ML, McEwen SC, Nees F, Orfanos DP, Paus T, Poustka L, Smolka MN, Vetter NC, Walter H, Schumann G, Garavan H, Conrod PJ, IMAGEN Consortium |
The American journal of psychiatry |
28320226 |
Am J Psychiatry |
2017 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28320226 |
| Separate neural systems for behavioral change and for emotional responses to failure during behavioral inhibition. |
Deng W, Rolls ET, Ji X, Robbins TW, Banaschewski T, Bokde ALW, Bromberg U, Buechel C, Desrivières S, Conrod P, Flor H, Frouin V, Gallinat J, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Lemaitre H, Nees F, Papadopoulos Orfanos D, Poustka L, Smolka MN, Walter H, Whelan R, Schumann G, Feng J |
Human brain mapping |
28429498 |
Hum Brain Mapp |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28429498 |
| Effect of Electroconvulsive Therapy on Striatal Morphometry in Major Depressive Disorder. |
Wade BS, Joshi SH, Njau S, Leaver AM, Vasavada M, Woods RP, Gutman BA, Thompson PM, Espinoza R, Narr KL |
Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology |
27067127 |
Neuropsychopharmacology |
2016 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/27067127 |
| Cognitive profiles and heritability estimates in the Old Order Amish. |
Kuehner RM, Kochunov P, Nugent KL, Jurius DE, Savransky A, Gaudiot C, Bruce HA, Gold J, Shuldiner AR, Mitchell BD, Hong LE |
Psychiatric genetics |
27105171 |
Psychiatr Genet |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/27105171 |
| The Arf6 activator Efa6/PSD3 confers regional specificity and modulates ethanol consumption in Drosophila and humans. |
Gonzalez DA, Jia T, Pinzón JH, Acevedo SF, Ojelade SA, Xu B, Tay N, Desrivières S, Hernandez JL, Banaschewski T, Büchel C, Bokde ALW, Conrod PJ, Flor H, Frouin V, Gallinat J, Garavan H, Gowland PA, Heinz A, Ittermann B, Lathrop M, Martinot JL, Paus T, Smolka MN, IMAGEN Consortium, Rodan AR, Schumann G, Rothenfluh A |
Molecular psychiatry |
28607459 |
Mol Psychiatry |
2018 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28607459 |
| An Integrated Analysis of Neural Network Correlates of Categorical and Dimensional Models of Attention-Deficit/Hyperactivity Disorder. |
Pruim RHR, Beckmann CF, Oldehinkel M, Oosterlaan J, Heslenfeld D, Hartman CA, Hoekstra PJ, Faraone SV, Franke B, Buitelaar JK, Mennes M |
Biological psychiatry. Cognitive neuroscience and neuroimaging |
30773473 |
Biol Psychiatry Cogn Neurosci Neuroimaging |
2019 May |
https://www.ncbi.nlm.nih.gov/pubmed/30773473 |
| Concordance of genetic variation that increases risk for tourette syndrome and that influences its underlying neurocircuitry. |
Mufford M, Cheung J, Jahanshad N, van der Merwe C, Ding L, Groenewold N, Koen N, Chimusa ER, Dalvie S, Ramesar R, Knowles JA, Lochner C, Hibar DP, Paschou P, van den Heuvel OA, Medland SE, Scharf JM, Mathews CA, Thompson PM, Stein DJ, Psychiatric Genomics Consortium - Tourette Syndrome working group |
Translational psychiatry |
30902966 |
Transl Psychiatry |
2019 Mar 22 |
https://www.ncbi.nlm.nih.gov/pubmed/30902966 |
| The Cortical Neuroimmune Regulator TANK Affects Emotional Processing and Enhances Alcohol Drinking: A Translational Study. |
Müller CP, Chu C, Qin L, Liu C, Xu B, Gao H, Ruggeri B, Hieber S, Schneider J, Jia T, Tay N, Akira S, Satoh T, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Flor H, Frouin V, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Artiges E, Lemaitre H, Nees F, Papadopoulos Orfanos D, Paus T, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Bakalkin G, Liu Y, Desrivières S, Elliott P, Eulenburg V, Levy D, Crews F, Schumann G |
Cerebral cortex (New York, N.Y. : 1991) |
30721969 |
Cereb Cortex |
2019 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30721969 |
| Elevated allostatic load early in the course of schizophrenia. |
Savransky A, Chiappelli J, Fisseha F, Wisner KM, Xiaoming D, Mirmomen SM, Jones AD, Adhikari BM, Bruce HA, Rowland LM, Hong LE |
Translational psychiatry |
30420620 |
Transl Psychiatry |
2018 Nov 12 |
https://www.ncbi.nlm.nih.gov/pubmed/30420620 |
| Genomic kinship construction to enhance genetic analyses in the human connectome project data. |
Kochunov P, Donohue B, Mitchell BD, Ganjgahi H, Adhikari B, Ryan M, Medland SE, Jahanshad N, Thompson PM, Blangero J, Fieremans E, Novikov DS, Marcus D, Van Essen DC, Glahn DC, Elliot Hong L, Nichols TE |
Human brain mapping |
30496643 |
Hum Brain Mapp |
2019 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30496643 |
| Exploration of Shared Genetic Architecture Between Subcortical Brain Volumes and Anorexia Nervosa. |
Walton E, Hibar D, Yilmaz Z, Jahanshad N, Cheung J, Batury VL, Seitz J, Bulik CM, PGC-ED, ENIGMA Genetics Working Group, Thompson PM, Ehrlich S |
Molecular neurobiology |
30519816 |
Mol Neurobiol |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30519816 |
| Mapping causal pathways from genetics to neuropsychiatric disorders using genome-wide imaging genetics: Current status and future directions. |
Le BD, Stein JL |
Psychiatry and clinical neurosciences |
30864184 |
Psychiatry Clin Neurosci |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30864184 |
| Amygdalar reactivity is associated with prefrontal cortical thickness in a large population-based sample of adolescents. |
Albaugh MD, Hudziak JJ, Orr C, Spechler PA, Chaarani B, Mackey S, Lepage C, Fonov V, Rioux P, Evans AC, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Desrivières S, Flor H, Grigis A, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Nees F, Orfanos DP, Paus T, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Potter AS, Garavan H, IMAGEN Consortium |
PloS one |
31048888 |
PLoS One |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31048888 |
| Neandertal Introgression Sheds Light on Modern Human Endocranial Globularity. |
Gunz P, Tilot AK, Wittfeld K, Teumer A, Shapland CY, van Erp TGM, Dannemann M, Vernot B, Neubauer S, Guadalupe T, Fernández G, Brunner HG, Enard W, Fallon J, Hosten N, Völker U, Profico A, Di Vincenzo F, Manzi G, Kelso J, St Pourcain B, Hublin JJ, Franke B, Pääbo S, Macciardi F, Grabe HJ, Fisher SE |
Current biology : CB |
30554901 |
Curr Biol |
2019 Jan 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30554901 |
| Association of Immunosuppression and Viral Load With Subcortical Brain Volume in an International Sample of People Living With HIV. |
Nir TM, Fouche JP, Ananworanich J, Ances BM, Boban J, Brew BJ, Chaganti JR, Chang L, Ching CRK, Cysique LA, Ernst T, Faskowitz J, Gupta V, Harezlak J, Heaps-Woodruff JM, Hinkin CH, Hoare J, Joska JA, Kallianpur KJ, Kuhn T, Lam HY, Law M, Lebrun-Frénay C, Levine AJ, Mondot L, Nakamoto BK, Navia BA, Pennec X, Porges EC, Salminen LE, Shikuma CM, Surento W, Thames AD, Valcour V, Vassallo M, Woods AJ, Thompson PM, Cohen RA, Paul R, Stein DJ, Jahanshad N |
JAMA network open |
33449093 |
JAMA Netw Open |
2021 Jan 4 |
https://www.ncbi.nlm.nih.gov/pubmed/33449093 |
| Mapping cortical and subcortical asymmetries in substance dependence: Findings from the ENIGMA Addiction Working Group. |
Cao Z, Ottino-Gonzalez J, Cupertino RB, Schwab N, Hoke C, Catherine O, Cousijn J, Dagher A, Foxe JJ, Goudriaan AE, Hester R, Hutchison K, Li CR, London ED, Lorenzetti V, Luijten M, Martin-Santos R, Momenan R, Paulus MP, Schmaal L, Sinha R, Sjoerds Z, Solowij N, Stein DJ, Stein EA, Uhlmann A, van Holst RJ, Veltman DJ, Wiers RW, Yücel M, Zhang S, Jahanshad N, Thompson PM, Conrod P, Mackey S, Garavan H |
Addiction biology |
33508888 |
Addict Biol |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/33508888 |
| Subcortical volumes across the lifespan: Data from 18,605 healthy individuals aged 3-90 years. |
Dima D, Modabbernia A, Papachristou E, Doucet GE, Agartz I, Aghajani M, Akudjedu TN, Albajes-Eizagirre A, Alnaes D, Alpert KI, Andersson M, Andreasen NC, Andreassen OA, Asherson P, Banaschewski T, Bargallo N, Baumeister S, Baur-Streubel R, Bertolino A, Bonvino A, Boomsma DI, Borgwardt S, Bourque J, Brandeis D, Breier A, Brodaty H, Brouwer RM, Buitelaar JK, Busatto GF, Buckner RL, Calhoun V, Canales-Rodríguez EJ, Cannon DM, Caseras X, Castellanos FX, Cervenka S, Chaim-Avancini TM, Ching CRK, Chubar V, Clark VP, Conrod P, Conzelmann A, Crespo-Facorro B, Crivello F, Crone EA, Dannlowski U, Dale AM, Davey C, de Geus EJC, de Haan L, de Zubicaray GI, den Braber A, Dickie EW, Di Giorgio A, Doan NT, Dørum ES, Ehrlich S, Erk S, Espeseth T, Fatouros-Bergman H, Fisher SE, Fouche JP, Franke B, Frodl T, Fuentes-Claramonte P, Glahn DC, Gotlib IH, Grabe HJ, Grimm O, Groenewold NA, Grotegerd D, Gruber O, Gruner P, Gur RE, Gur RC, Hahn T, Harrison BJ, Hartman CA, Hatton SN, Heinz A, Heslenfeld DJ, Hibar DP, Hickie IB, Ho BC, Hoekstra PJ, Hohmann S, Holmes AJ, Hoogman M, Hosten N, Howells FM, Hulshoff Pol HE, Huyser C, Jahanshad N, James A, Jernigan TL, Jiang J, Jönsson EG, Joska JA, Kahn R, Kalnin A, Kanai R, Klein M, Klyushnik TP, Koenders L, Koops S, Krämer B, Kuntsi J, Lagopoulos J, Lázaro L, Lebedeva I, Lee WH, Lesch KP, Lochner C, Machielsen MWJ, Maingault S, Martin NG, Martínez-Zalacaín I, Mataix-Cols D, Mazoyer B, McDonald C, McDonald BC, McIntosh AM, McMahon KL, McPhilemy G, Meinert S, Menchón JM, Medland SE, Meyer-Lindenberg A, Naaijen J, Najt P, Nakao T, Nordvik JE, Nyberg L, Oosterlaan J, de la Foz VO, Paloyelis Y, Pauli P, Pergola G, Pomarol-Clotet E, Portella MJ, Potkin SG, Radua J, Reif A, Rinker DA, Roffman JL, Rosa PGP, Sacchet MD, Sachdev PS, Salvador R, Sánchez-Juan P, Sarró S, Satterthwaite TD, Saykin AJ, Serpa MH, Schmaal L, Schnell K, Schumann G, Sim K, Smoller JW, Sommer I, Soriano-Mas C, Stein DJ, Strike LT, Swagerman SC, Tamnes CK, Temmingh HS, Thomopoulos SI, Tomyshev AS, Tordesillas-Gutiérrez D, Trollor JN, Turner JA, Uhlmann A, van den Heuvel OA, van den Meer D, van der Wee NJA, van Haren NEM, Van't Ent D, van Erp TGM, Veer IM, Veltman DJ, Voineskos A, Völzke H, Walter H, Walton E, Wang L, Wang Y, Wassink TH, Weber B, Wen W, West JD, Westlye LT, Whalley H, Wierenga LM, Williams SCR, Wittfeld K, Wolf DH, Worker A, Wright MJ, Yang K, Yoncheva Y, Zanetti MV, Ziegler GC, Thompson PM, Frangou S, Karolinska Schizophrenia Project (KaSP) |
Human brain mapping |
33570244 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33570244 |
| Scanner invariant representations for diffusion MRI harmonization. |
Moyer D, Ver Steeg G, Tax CMW, Thompson PM |
Magnetic resonance in medicine |
32250475 |
Magn Reson Med |
2020 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/32250475 |
| Genetic correlations between subcortical brain volumes and psychiatric disorders. |
Ohi K, Shimada T, Kataoka Y, Yasuyama T, Kawasaki Y, Shioiri T, Thompson PM |
The British journal of psychiatry : the journal of mental science |
32000869 |
Br J Psychiatry |
2020 May |
https://www.ncbi.nlm.nih.gov/pubmed/32000869 |
| ENIGMA and global neuroscience: A decade of large-scale studies of the brain in health and disease across more than 40 countries. |
Thompson PM, Jahanshad N, Ching CRK, Salminen LE, Thomopoulos SI, Bright J, Baune BT, Bertolín S, Bralten J, Bruin WB, Bülow R, Chen J, Chye Y, Dannlowski U, de Kovel CGF, Donohoe G, Eyler LT, Faraone SV, Favre P, Filippi CA, Frodl T, Garijo D, Gil Y, Grabe HJ, Grasby KL, Hajek T, Han LKM, Hatton SN, Hilbert K, Ho TC, Holleran L, Homuth G, Hosten N, Houenou J, Ivanov I, Jia T, Kelly S, Klein M, Kwon JS, Laansma MA, Leerssen J, Lueken U, Nunes A, Neill JO, Opel N, Piras F, Piras F, Postema MC, Pozzi E, Shatokhina N, Soriano-Mas C, Spalletta G, Sun D, Teumer A, Tilot AK, Tozzi L, van der Merwe C, Van Someren EJW, van Wingen GA, Völzke H, Walton E, Wang L, Winkler AM, Wittfeld K, Wright MJ, Yun JY, Zhang G, Zhang-James Y, Adhikari BM, Agartz I, Aghajani M, Aleman A, Althoff RR, Altmann A, Andreassen OA, Baron DA, Bartnik-Olson BL, Marie Bas-Hoogendam J, Baskin-Sommers AR, Bearden CE, Berner LA, Boedhoe PSW, Brouwer RM, Buitelaar JK, Caeyenberghs K, Cecil CAM, Cohen RA, Cole JH, Conrod PJ, De Brito SA, de Zwarte SMC, Dennis EL, Desrivieres S, Dima D, Ehrlich S, Esopenko C, Fairchild G, Fisher SE, Fouche JP, Francks C, Frangou S, Franke B, Garavan HP, Glahn DC, Groenewold NA, Gurholt TP, Gutman BA, Hahn T, Harding IH, Hernaus D, Hibar DP, Hillary FG, Hoogman M, Hulshoff Pol HE, Jalbrzikowski M, Karkashadze GA, Klapwijk ET, Knickmeyer RC, Kochunov P, Koerte IK, Kong XZ, Liew SL, Lin AP, Logue MW, Luders E, Macciardi F, Mackey S, Mayer AR, McDonald CR, McMahon AB, Medland SE, Modinos G, Morey RA, Mueller SC, Mukherjee P, Namazova-Baranova L, Nir TM, Olsen A, Paschou P, Pine DS, Pizzagalli F, Rentería ME, Rohrer JD, Sämann PG, Schmaal L, Schumann G, Shiroishi MS, Sisodiya SM, Smit DJA, Sønderby IE, Stein DJ, Stein JL, Tahmasian M, Tate DF, Turner JA, van den Heuvel OA, van der Wee NJA, van der Werf YD, van Erp TGM, van Haren NEM, van Rooij D, van Velzen LS, Veer IM, Veltman DJ, Villalon-Reina JE, Walter H, Whelan CD, Wilde EA, Zarei M, Zelman V, ENIGMA Consortium |
Translational psychiatry |
32198361 |
Transl Psychiatry |
2020 Mar 20 |
https://www.ncbi.nlm.nih.gov/pubmed/32198361 |
| Association between body mass index and subcortical brain volumes in bipolar disorders-ENIGMA study in 2735 individuals. |
McWhinney SR, Abé C, Alda M, Benedetti F, Bøen E, Del Mar Bonnin C, Borgers T, Brosch K, Canales-Rodríguez EJ, Cannon DM, Dannlowski U, Díaz-Zuluaga AM, Elvsåshagen T, Eyler LT, Fullerton JM, Goikolea JM, Goltermann J, Grotegerd D, Haarman BCM, Hahn T, Howells FM, Ingvar M, Kircher TTJ, Krug A, Kuplicki RT, Landén M, Lemke H, Liberg B, Lopez-Jaramillo C, Malt UF, Martyn FM, Mazza E, McDonald C, McPhilemy G, Meier S, Meinert S, Meller T, Melloni EMT, Mitchell PB, Nabulsi L, Nenadic I, Opel N, Ophoff RA, Overs BJ, Pfarr JK, Pineda-Zapata JA, Pomarol-Clotet E, Raduà J, Repple J, Richter M, Ringwald KG, Roberts G, Salvador R, Savitz J, Schmitt S, Schofield PR, Sim K, Stein DJ, Stein F, Temmingh HS, Thiel K, van Haren NEM, Gestel HV, Vargas C, Vieta E, Vreeker A, Waltemate L, Yatham LN, Ching CRK, Andreassen O, Thompson PM, Hajek T, ENIGMA Bipolar Disorders Working Group |
Molecular psychiatry |
33863996 |
Mol Psychiatry |
2021 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/33863996 |
| Predicting Depression Onset in Young People Based on Clinical, Cognitive, Environmental, and Neurobiological Data. |
Toenders YJ, Kottaram A, Dinga R, Davey CG, Banaschewski T, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Paillère Martinot ML, Nees F, Orfanos DP, Lemaitre H, Paus T, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Stringaris A, van Noort B, Penttilä J, Grimmer Y, Insensee C, Becker A, Schumann G, IMAGEN Consortium, Schmaal L |
Biological psychiatry. Cognitive neuroscience and neuroimaging |
33753312 |
Biol Psychiatry Cogn Neurosci Neuroimaging |
2022 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/33753312 |
| Structural and functional brain alterations revealed by neuroimaging in CNV carriers. |
Moreau CA, Ching CR, Kumar K, Jacquemont S, Bearden CE |
Current opinion in genetics & development |
33812299 |
Curr Opin Genet Dev |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/33812299 |
| Sex is a defining feature of neuroimaging phenotypes in major brain disorders. |
Salminen LE, Tubi MA, Bright J, Thomopoulos SI, Wieand A, Thompson PM |
Human brain mapping |
33949018 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33949018 |
| Endocannabinoid Gene × Gene Interaction Association to Alcohol Use Disorder in Two Adolescent Cohorts. |
Elkrief L, Spinney S, Vosberg DE, Banaschewski T, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Paillère Martinot ML, Nees F, Papadopoulos Orfanos D, Poustka L, Hohmann S, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Pausova Z, Paus T, Huguet G, Conrod P, IMAGEN consortium |
Frontiers in psychiatry |
33959052 |
Front Psychiatry |
2021 |
https://www.ncbi.nlm.nih.gov/pubmed/33959052 |
| A UNIVARIATE PERSISTENT BRAIN NETWORK FEATURE BASED ON THE AGGREGATED COST OF CYCLES FROM THE NESTED FILTRATION NETWORKS. |
Farazi M, Zhan L, Lepore N, Thompson PM, Wang Y |
Proceedings. IEEE International Symposium on Biomedical Imaging |
34012505 |
Proc IEEE Int Symp Biomed Imaging |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/34012505 |
| Sex differences in neural correlates of common psychopathological symptoms in early adolescence. |
Biondo F, Thunell CN, Xu B, Chu C, Jia T, Ing A, Quinlan EB, Tay N, Banaschewski T, Bokde ALW, Büchel C, Desrivières S, Flor H, Frouin V, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Lemaitre H, Nees F, Orfanos DP, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Barker ED, Schumann G, IMAGEN Consortium |
Psychological medicine |
33769238 |
Psychol Med |
2022 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/33769238 |
| Characterizing neuroanatomic heterogeneity in people with and without ADHD based on subcortical brain volumes. |
Li T, van Rooij D, Roth Mota N, Buitelaar JK, ENIGMA ADHD Working Group, Hoogman M, Arias Vasquez A, Franke B |
Journal of child psychology and psychiatry, and allied disciplines |
33786843 |
J Child Psychol Psychiatry |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/33786843 |
| Large-scale collaboration in ENIGMA-EEG: A perspective on the meta-analytic approach to link neurological and psychiatric liability genes to electrophysiological brain activity. |
Smit DJA, Andreassen OA, Boomsma DI, Burwell SJ, Chorlian DB, de Geus EJC, Elvsåshagen T, Gordon RL, Harper J, Hegerl U, Hensch T, Iacono WG, Jawinski P, Jönsson EG, Luykx JJ, Magne CL, Malone SM, Medland SE, Meyers JL, Moberget T, Porjesz B, Sander C, Sisodiya SM, Thompson PM, van Beijsterveldt CEM, van Dellen E, Via M, Wright MJ |
Brain and behavior |
34291596 |
Brain Behav |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/34291596 |
| Artificial intelligence for classification of temporal lobe epilepsy with ROI-level MRI data: A worldwide ENIGMA-Epilepsy study. |
Gleichgerrcht E, Munsell BC, Alhusaini S, Alvim MKM, Bargalló N, Bender B, Bernasconi A, Bernasconi N, Bernhardt B, Blackmon K, Caligiuri ME, Cendes F, Concha L, Desmond PM, Devinsky O, Doherty CP, Domin M, Duncan JS, Focke NK, Gambardella A, Gong B, Guerrini R, Hatton SN, Kälviäinen R, Keller SS, Kochunov P, Kotikalapudi R, Kreilkamp BAK, Labate A, Langner S, Larivière S, Lenge M, Lui E, Martin P, Mascalchi M, Meletti S, O'Brien TJ, Pardoe HR, Pariente JC, Xian Rao J, Richardson MP, Rodríguez-Cruces R, Rüber T, Sinclair B, Soltanian-Zadeh H, Stein DJ, Striano P, Taylor PN, Thomas RH, Elisabetta Vaudano A, Vivash L, von Podewills F, Vos SB, Weber B, Yao Y, Lin Yasuda C, Zhang J, Thompson PM, Sisodiya SM, McDonald CR, Bonilha L, ENIGMA-Epilepsy Working Group |
NeuroImage. Clinical |
34339947 |
Neuroimage Clin |
2021 |
https://www.ncbi.nlm.nih.gov/pubmed/34339947 |
| Prioritizing Genetic Contributors to Cortical Alterations in 22q11.2 Deletion Syndrome Using Imaging Transcriptomics. |
Forsyth JK, Mennigen E, Lin A, Sun D, Vajdi A, Kushan-Wells L, Ching CRK, Villalon-Reina JE, Thompson PM, 22q11.2 ENIGMA Consortium, Bearden CE |
Cerebral cortex (New York, N.Y. : 1991) |
33638978 |
Cereb Cortex |
2021 Jun 10 |
https://www.ncbi.nlm.nih.gov/pubmed/33638978 |
| Genetic variants associated with longitudinal changes in brain structure across the lifespan. |
Brouwer RM, Klein M, Grasby KL, Schnack HG, Jahanshad N, Teeuw J, Thomopoulos SI, Sprooten E, Franz CE, Gogtay N, Kremen WS, Panizzon MS, Olde Loohuis LM, Whelan CD, Aghajani M, Alloza C, Alnæs D, Artiges E, Ayesa-Arriola R, Barker GJ, Bastin ME, Blok E, Bøen E, Breukelaar IA, Bright JK, Buimer EEL, Bülow R, Cannon DM, Ciufolini S, Crossley NA, Damatac CG, Dazzan P, de Mol CL, de Zwarte SMC, Desrivières S, Díaz-Caneja CM, Doan NT, Dohm K, Fröhner JH, Goltermann J, Grigis A, Grotegerd D, Han LKM, Harris MA, Hartman CA, Heany SJ, Heindel W, Heslenfeld DJ, Hohmann S, Ittermann B, Jansen PR, Janssen J, Jia T, Jiang J, Jockwitz C, Karali T, Keeser D, Koevoets MGJC, Lenroot RK, Malchow B, Mandl RCW, Medel V, Meinert S, Morgan CA, Mühleisen TW, Nabulsi L, Opel N, de la Foz VO, Overs BJ, Paillère Martinot ML, Redlich R, Marques TR, Repple J, Roberts G, Roshchupkin GV, Setiaman N, Shumskaya E, Stein F, Sudre G, Takahashi S, Thalamuthu A, Tordesillas-Gutiérrez D, van der Lugt A, van Haren NEM, Wardlaw JM, Wen W, Westeneng HJ, Wittfeld K, Zhu AH, Zugman A, Armstrong NJ, Bonfiglio G, Bralten J, Dalvie S, Davies G, Di Forti M, Ding L, Donohoe G, Forstner AJ, Gonzalez-Peñas J, Guimaraes JPOFT, Homuth G, Hottenga JJ, Knol MJ, Kwok JBJ, Le Hellard S, Mather KA, Milaneschi Y, Morris DW, Nöthen MM, Papiol S, Rietschel M, Santoro ML, Steen VM, Stein JL, Streit F, Tankard RM, Teumer A, van 't Ent D, van der Meer D, van Eijk KR, Vassos E, Vázquez-Bourgon J, Witt SH, IMAGEN Consortium, Adams HHH, Agartz I, Ames D, Amunts K, Andreassen OA, Arango C, Banaschewski T, Baune BT, Belangero SI, Bokde ALW, Boomsma DI, Bressan RA, Brodaty H, Buitelaar JK, Cahn W, Caspers S, Cichon S, Crespo-Facorro B, Cox SR, Dannlowski U, Elvsåshagen T, Espeseth T, Falkai PG, Fisher SE, Flor H, Fullerton JM, Garavan H, Gowland PA, Grabe HJ, Hahn T, Heinz A, Hillegers M, Hoare J, Hoekstra PJ, Ikram MA, Jackowski AP, Jansen A, Jönsson EG, Kahn RS, Kircher T, Korgaonkar MS, Krug A, Lemaitre H, Malt UF, Martinot JL, McDonald C, Mitchell PB, Muetzel RL, Murray RM, Nees F, Nenadić I, Oosterlaan J, Ophoff RA, Pan PM, Penninx BWJH, Poustka L, Sachdev PS, Salum GA, Schofield PR, Schumann G, Shaw P, Sim K, Smolka MN, Stein DJ, Trollor JN, van den Berg LH, Veldink JH, Walter H, Westlye LT, Whelan R, White T, Wright MJ, Medland SE, Franke B, Thompson PM, Hulshoff Pol HE |
Nature neuroscience |
35383335 |
Nat Neurosci |
2022 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/35383335 |
| Similarity and stability of face network across populations and throughout adolescence and adulthood. |
Liao Z, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Poustka L, Hohmann S, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Paus T, IMAGEN consortium |
NeuroImage |
34560271 |
Neuroimage |
2021 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/34560271 |
| Age-dependent white matter disruptions after military traumatic brain injury: Multivariate analysis results from ENIGMA brain injury. |
Bouchard HC, Sun D, Dennis EL, Newsome MR, Disner SG, Elman J, Silva A, Velez C, Irimia A, Davenport ND, Sponheim SR, Franz CE, Kremen WS, Coleman MJ, Williams MW, Geuze E, Koerte IK, Shenton ME, Adamson MM, Coimbra R, Grant G, Shutter L, George MS, Zafonte RD, McAllister TW, Stein MB, Thompson PM, Wilde EA, Tate DF, Sotiras A, Morey RA |
Human brain mapping |
35289463 |
Hum Brain Mapp |
2022 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/35289463 |
| Data-driven biomarkers outperform theory-based biomarkers in predicting stroke motor outcomes. |
Olafson ER, Sperber C, Jamison KW, Bowren MD Jr, Boes AD, Andrushko JW, Borich MR, Boyd LA, Cassidy JM, Conforto AB, Cramer SC, Dula AN, Geranmayeh F, Hordacre B, Jahanshad N, Kautz SA, Lo B, MacIntosh BJ, Piras F, Robertson AD, Seo NJ, Soekadar SR, Thomopoulos SI, Vecchio D, Weng TB, Westlye LT, Winstein CJ, Wittenberg GF, Wong KA, Thompson PM, Liew SL, Kuceyeski AF |
bioRxiv : the preprint server for biology |
37693419 |
bioRxiv |
2023 Sep 1 |
https://www.ncbi.nlm.nih.gov/pubmed/37693419 |
| Genetics of cell-type-specific post-transcriptional gene regulation during human neurogenesis. |
Aygün N, Krupa O, Mory J, Le B, Valone J, Liang D, Love MI, Stein JL |
bioRxiv : the preprint server for biology |
37693528 |
bioRxiv |
2023 Sep 1 |
https://www.ncbi.nlm.nih.gov/pubmed/37693528 |
| Regional, circuit and network heterogeneity of brain abnormalities in psychiatric disorders. |
Segal A, Parkes L, Aquino K, Kia SM, Wolfers T, Franke B, Hoogman M, Beckmann CF, Westlye LT, Andreassen OA, Zalesky A, Harrison BJ, Davey CG, Soriano-Mas C, Cardoner N, Tiego J, Yücel M, Braganza L, Suo C, Berk M, Cotton S, Bellgrove MA, Marquand AF, Fornito A |
Nature neuroscience |
37580620 |
Nat Neurosci |
2023 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/37580620 |
| Longitudinal Associations between Peer and Family Relationships, Emotional Symptoms, and Regional Brain Volume across Adolescence. |
Stepanous J, Munford L, Qualter P, Nees F, Elliott R, IMAGEN Consortium |
Journal of youth and adolescence |
36807228 |
J Youth Adolesc |
2023 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/36807228 |
| Conduct problems are associated with accelerated thinning of emotion-related cortical regions in a community-based sample of adolescents. |
Albaugh MD, Hudziak JJ, Spechler PA, Chaarani B, Lepage C, Jeon S, Rioux P, Evans AC, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Nees F, Orfanos DP, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Potter AS, Garavan H, IMAGEN Consortium |
Psychiatry research. Neuroimaging |
36812809 |
Psychiatry Res Neuroimaging |
2023 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/36812809 |
| Rare CNVs and phenome-wide profiling highlight brain structural divergence and phenotypical convergence. |
Kopal J, Kumar K, Saltoun K, Modenato C, Moreau CA, Martin-Brevet S, Huguet G, Jean-Louis M, Martin CO, Saci Z, Younis N, Tamer P, Douard E, Maillard AM, Rodriguez-Herreros B, Pain A, Richetin S, Kushan L, Silva AI, van den Bree MBM, Linden DEJ, Owen MJ, Hall J, Lippé S, Draganski B, Sønderby IE, Andreassen OA, Glahn DC, Thompson PM, Bearden CE, Jacquemont S, Bzdok D |
Nature human behaviour |
36864136 |
Nat Hum Behav |
2023 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/36864136 |
| Coordinated cortical thickness alterations across six neurodevelopmental and psychiatric disorders. |
Hettwer MD, Larivière S, Park BY, van den Heuvel OA, Schmaal L, Andreassen OA, Ching CRK, Hoogman M, Buitelaar J, van Rooij D, Veltman DJ, Stein DJ, Franke B, van Erp TGM, ENIGMA ADHD Working Group, ENIGMA Autism Working Group, ENIGMA Bipolar Disorder Working Group, ENIGMA Major Depression Working Group, ENIGMA OCD Working Group, ENIGMA Schizophrenia Working Group, Jahanshad N, Thompson PM, Thomopoulos SI, Bethlehem RAI, Bernhardt BC, Eickhoff SB, Valk SL |
Nature communications |
36369423 |
Nat Commun |
2022 Nov 11 |
https://www.ncbi.nlm.nih.gov/pubmed/36369423 |
| Social environment and brain structure in adolescent mental health: A cross-sectional structural equation modelling study using IMAGEN data. |
Stepanous J, Munford L, Qualter P, Banaschewski T, Nees F, Elliott R, IMAGEN Consortium |
PloS one |
36603003 |
PLoS One |
2023 |
https://www.ncbi.nlm.nih.gov/pubmed/36603003 |
| Brain functional connectivity mirrors genetic pleiotropy in psychiatric conditions. |
Moreau CA, Kumar K, Harvey A, Huguet G, Urchs SGW, Schultz LM, Sharmarke H, Jizi K, Martin CO, Younis N, Tamer P, Martineau JL, Orban P, Silva AI, Hall J, van den Bree MBM, Owen MJ, Linden DEJ, Lippé S, Bearden CE, Almasy L, Glahn DC, Thompson PM, Bourgeron T, Bellec P, Jacquemont S |
Brain : a journal of neurology |
36059063 |
Brain |
2023 Apr 19 |
https://www.ncbi.nlm.nih.gov/pubmed/36059063 |
| Shape analysis of subcortical structures in obsessive-compulsive disorder and the relationship with comorbid anxiety, depression, and medication use: A meta-analysis by the OCD Brain Imaging Consortium. |
Fouche JP, Groenewold NA, Sevenoaks T, Heany S, Lochner C, Alonso P, Batistuzzo MC, Cardoner N, Ching CRK, de Wit SJ, Gutman B, Hoexter MQ, Jahanshad N, Kim M, Kwon JS, Mataix-Cols D, Menchon JM, Miguel EC, Nakamae T, Phillips ML, Pujol J, Sakai Y, Yun JY, Soriano-Mas C, Thompson PM, Yamada K, Veltman DJ, van den Heuvel OA, Stein DJ |
Brain and behavior |
36106505 |
Brain Behav |
2022 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/36106505 |
| Normative Modeling of Brain Morphometry in Clinical High Risk for Psychosis. |
ENIGMA Clinical High Risk for Psychosis Working Group, Haas SS, Ge R, Agartz I, Amminger GP, Andreassen OA, Bachman P, Baeza I, Choi S, Colibazzi T, Cropley VL, de la Fuente-Sandoval C, Ebdrup BH, Fortea A, Fusar-Poli P, Glenthøj BY, Glenthøj LB, Haut KM, Hayes RA, Heekeren K, Hooker CI, Hwang WJ, Jahanshad N, Kaess M, Kasai K, Katagiri N, Kim M, Kindler J, Koike S, Kristensen TD, Kwon JS, Lawrie SM, Lebedeva I, Lee J, Lemmers-Jansen ILJ, Lin A, Ma X, Mathalon DH, McGuire P, Michel C, Mizrahi R, Mizuno M, Møller P, Mora-Durán R, Nelson B, Nemoto T, Nordentoft M, Nordholm D, Omelchenko MA, Pantelis C, Pariente JC, Raghava JM, Reyes-Madrigal F, Røssberg JI, Rössler W, Salisbury DF, Sasabayashi D, Schall U, Smigielski L, Sugranyes G, Suzuki M, Takahashi T, Tamnes CK, Theodoridou A, Thomopoulos SI, Thompson PM, Tomyshev AS, Uhlhaas PJ, Værnes TG, van Amelsvoort TAMJ, van Erp TGM, Waltz JA, Wenneberg C, Westlye LT, Wood SJ, Zhou JH, Hernaus D, Jalbrzikowski M, Kahn RS, Corcoran CM, Frangou S |
JAMA psychiatry |
37819650 |
JAMA Psychiatry |
2024 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/37819650 |
| Hemispheric asymmetry in cortical thinning reflects intrinsic organization of the neurotransmitter systems and homotopic functional connectivity. |
Liao Z, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Papadopoulos Orfanos D, Poustka L, Hohmann S, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Paus T, IMAGEN Consortium |
Proceedings of the National Academy of Sciences of the United States of America |
37831741 |
Proc Natl Acad Sci U S A |
2023 Oct 17 |
https://www.ncbi.nlm.nih.gov/pubmed/37831741 |
| The functional connectome in obsessive-compulsive disorder: resting-state mega-analysis and machine learning classification for the ENIGMA-OCD consortium. |
Bruin WB, Abe Y, Alonso P, Anticevic A, Backhausen LL, Balachander S, Bargallo N, Batistuzzo MC, Benedetti F, Bertolin Triquell S, Brem S, Calesella F, Couto B, Denys DAJP, Echevarria MAN, Eng GK, Ferreira S, Feusner JD, Grazioplene RG, Gruner P, Guo JY, Hagen K, Hansen B, Hirano Y, Hoexter MQ, Jahanshad N, Jaspers-Fayer F, Kasprzak S, Kim M, Koch K, Bin Kwak Y, Kwon JS, Lazaro L, Li CR, Lochner C, Marsh R, Martínez-Zalacaín I, Menchon JM, Moreira PS, Morgado P, Nakagawa A, Nakao T, Narayanaswamy JC, Nurmi EL, Zorrilla JCP, Piacentini J, Picó-Pérez M, Piras F, Piras F, Pittenger C, Reddy JYC, Rodriguez-Manrique D, Sakai Y, Shimizu E, Shivakumar V, Simpson BH, Soriano-Mas C, Sousa N, Spalletta G, Stern ER, Evelyn Stewart S, Szeszko PR, Tang J, Thomopoulos SI, Thorsen AL, Yoshida T, Tomiyama H, Vai B, Veer IM, Venkatasubramanian G, Vetter NC, Vriend C, Walitza S, Waller L, Wang Z, Watanabe A, Wolff N, Yun JY, Zhao Q, van Leeuwen WA, van Marle HJF, van de Mortel LA, van der Straten A, van der Werf YD, ENIGMA-OCD Working Group, Thompson PM, Stein DJ, van den Heuvel OA, van Wingen GA |
Molecular psychiatry |
37131072 |
Mol Psychiatry |
2023 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/37131072 |
| Dissecting the heterogeneous subcortical brain volume of autism spectrum disorder using community detection. |
Li T, Hoogman M, Roth Mota N, Buitelaar JK, ENIGMA-ASD working group, Vasquez AA, Franke B, van Rooij D |
Autism research : official journal of the International Society for Autism Research |
34704385 |
Autism Res |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/34704385 |
| Altered lateralization of the cingulum in deployment-related traumatic brain injury: An ENIGMA military-relevant brain injury study. |
Dennis EL, Newsome MR, Lindsey HM, Adamson M, Austin TA, Disner SG, Eapen BC, Esopenko C, Franz CE, Geuze E, Haswell C, Hinds SR 2nd, Hodges CB, Irimia A, Kenney K, Koerte IK, Kremen WS, Levin HS, Morey RA, Ollinger J, Rowland JA, Scheibel RS, Shenton ME, Sullivan DR, Talbert LD, Thomopoulos SI, Troyanskaya M, Walker WC, Wang X, Ware AL, Werner JK, Williams W, Thompson PM, Tate DF, Wilde EA |
Human brain mapping |
36583562 |
Hum Brain Mapp |
2023 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/36583562 |
| Psychotic Like Experiences in Healthy Adolescents are Underpinned by Lower Fronto-Temporal Cortical Gyrification: a Study from the IMAGEN Consortium. |
Maitra R, Horne CM, O'Daly O, Papanastasiou E, Gaser C, IMAGEN list of authors, IMAGEN Consortium |
Schizophrenia bulletin |
36226895 |
Schizophr Bull |
2023 Mar 15 |
https://www.ncbi.nlm.nih.gov/pubmed/36226895 |
| Variation in moment-to-moment brain state engagement changes across development and contributes to individual differences in executive function. |
Ye J, Tejavibulya L, Dai W, Cope LM, Hardee JE, Heitzeg MM, Lichenstein S, Yip SW, Banaschewski T, Baker GJ, Bokde ALW, Brühl R, Desrivières S, Flor H, Gowland P, Grigis A, Heinz A, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Orfanos DP, Poustka L, Hohmann S, Holz N, Baeuchl C, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Garavan H, Chaarani B, Gee DG, Baskin-Sommers A, Casey BJ, IMAGEN consortium, Scheinost D |
bioRxiv : the preprint server for biology |
39314397 |
bioRxiv |
2024 Sep 11 |
https://www.ncbi.nlm.nih.gov/pubmed/39314397 |
| Personality, Social Factors, Brain Functioning, Familial Risk, and Trajectories of Alcohol Misuse in Adolescence. |
Tschorn M, Daedelow L, Szalek L, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Poustka L, Hohmann S, Buechl C, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Heinz A, Rapp MA, IMAGEN Consortium |
JAMA network open |
39150713 |
JAMA Netw Open |
2024 Aug 1 |
https://www.ncbi.nlm.nih.gov/pubmed/39150713 |
| Genomic analysis of intracranial and subcortical brain volumes yields polygenic scores accounting for variation across ancestries. |
García-Marín LM, Campos AI, Diaz-Torres S, Rabinowitz JA, Ceja Z, Mitchell BL, Grasby KL, Thorp JG, Agartz I, Alhusaini S, Ames D, Amouyel P, Andreassen OA, Arfanakis K, Arias-Vasquez A, Armstrong NJ, Athanasiu L, Bastin ME, Beiser AS, Bennett DA, Bis JC, Boks MPM, Boomsma DI, Brodaty H, Brouwer RM, Buitelaar JK, Burkhardt R, Cahn W, Calhoun VD, Carmichael OT, Chakravarty M, Chen Q, Ching CRK, Cichon S, Crespo-Facorro B, Crivello F, Dale AM, Smith GD, de Geus EJC, De Jager PL, de Zubicaray GI, Debette S, DeCarli C, Depondt C, Desrivières S, Djurovic S, Ehrlich S, Erk S, Espeseth T, Fernández G, Filippi I, Fisher SE, Fleischman DA, Fletcher E, Fornage M, Forstner AJ, Francks C, Franke B, Ge T, Goldman AL, Grabe HJ, Green RC, Grimm O, Groenewold NA, Gruber O, Gudnason V, Håberg AK, Haukvik UK, Heinz A, Hibar DP, Hilal S, Himali JJ, Ho BC, Hoehn DF, Hoekstra PJ, Hofer E, Hoffmann W, Holmes AJ, Homuth G, Hosten N, Ikram MK, Ipser JC, Jack CR Jr, Jahanshad N, Jönsson EG, Kahn RS, Kanai R, Klein M, Knol MJ, Launer LJ, Lawrie SM, Hellard SL, Lee PH, Lemaître H, Li S, Liewald DCM, Lin H, Longstreth WT Jr, Lopez OL, Luciano M, Maillard P, Marquand AF, Martin NG, Martinot JL, Mather KA, Mattay VS, McMahon KL, Mecocci P, Melle I, Meyer-Lindenberg A, Mirza-Schreiber N, Milaneschi Y, Mosley TH, Mühleisen TW, Müller-Myhsok B, Maniega SM, Nauck M, Nho K, Niessen WJ, Nöthen MM, Nyquist PA, Oosterlaan J, Pandolfo M, Paus T, Pausova Z, Penninx BWJH, Pike GB, Psaty BM, Pütz B, Reppermund S, Rietschel MD, Risacher SL, Romanczuk-Seiferth N, Romero-Garcia R, Roshchupkin GV, Rotter JI, Sachdev PS, Sämann PG, Saremi A, Sargurupremraj M, Saykin AJ, Schmaal L, Schmidt H, Schmidt R, Schofield PR, Scholz M, Schumann G, Schwarz E, Shen L, Shin J, Sisodiya SM, Smith AV, Smoller JW, Soininen HS, Steen VM, Stein DJ, Stein JL, Thomopoulos SI, Toga AW, Tordesillas-Gutiérrez D, Trollor JN, Valdes-Hernandez MC, van T Ent D, van Bokhoven H, van der Meer D, van der Wee NJA, Vázquez-Bourgon J, Veltman DJ, Vernooij MW, Villringer A, Vinke LN, Völzke H, Walter H, Wardlaw JM, Weinberger DR, Weiner MW, Wen W, Westlye LT, Westman E, White T, Witte AV, Wolf C, Yang J, Zwiers MP, Ikram MA, Seshadri S, Thompson PM, Satizabal CL, Medland SE, Rentería ME |
Nature genetics |
39433889 |
Nat Genet |
2024 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/39433889 |
| Networks extracted from nonlinear fMRI connectivity exhibit unique spatial variation and enhanced sensitivity to differences between individuals with schizophrenia and controls. |
Kinsey S, Kazimierczak K, Camazón PA, Chen J, Adali T, Kochunov P, Adhikari BM, Ford J, van Erp TGM, Dhamala M, Calhoun VD, Iraji A |
Nature. Mental health |
39650801 |
Nat Ment Health |
2024 |
https://www.ncbi.nlm.nih.gov/pubmed/39650801 |
| Predicting Antidepressant Treatment Response From Cortical Structure on MRI: A Mega-Analysis From the ENIGMA-MDD Working Group. |
Poirot MG, Boucherie DE, Caan MWA, Goya-Maldonado R, Belov V, Corruble E, Colle R, Couvy-Duchesne B, Kamishikiryo T, Shinzato H, Ichikawa N, Okada G, Okamoto Y, Harrison BJ, Davey CG, Jamieson AJ, Cullen KR, Başgöze Z, Klimes-Dougan B, Mueller BA, Benedetti F, Poletti S, Melloni EMT, Ching CRK, Zeng LL, Radua J, Han LKM, Jahanshad N, Thomopoulos SI, Pozzi E, Veltman DJ, Schmaal L, Thompson PM, Ruhe HG, Reneman L, Schrantee A |
Human brain mapping |
39757979 |
Hum Brain Mapp |
2025 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/39757979 |
| Unraveling robust brain-behavior links of depressive complaints through granular network models for understanding heterogeneity. |
Freichel R, Lenartowicz A, Douw L, Kruschwitz JD, Banaschewski T, Barker GJ, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Paus T, Poustka L, Holz N, Baeuchl C, Smolka MN, Vaidya N, Whelan R, Frouin V, Schumann G, IMAGEN Consortium, Walter H, Blanken TF |
Journal of affective disorders |
38754596 |
J Affect Disord |
2024 Aug 15 |
https://www.ncbi.nlm.nih.gov/pubmed/38754596 |
| Genetic-Dependent Brain Signatures of Resilience: Interactions among Childhood Abuse, Genetic Risks and Brain Function. |
Lu H, Rolls ET, Liu H, Stein DJ, Sahakian BJ, Elliott R, Jia T, Xie C, Xiang S, Wang N, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Lemaitre H, Poustka L, Hohmann S, Holz N, Fröhner JH, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Feng J, Luo Q, IMAGEN Consortium |
bioRxiv : the preprint server for biology |
39345616 |
bioRxiv |
2024 Sep 16 |
https://www.ncbi.nlm.nih.gov/pubmed/39345616 |
| Machine learning models for diagnosis and risk prediction in eating disorders, depression, and alcohol use disorder. |
Zhang Z, Robinson L, Whelan R, Jollans L, Wang Z, Nees F, Chu C, Bobou M, Du D, Cristea I, Banaschewski T, Barker GJ, Bokde ALW, Grigis A, Garavan H, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Orfanos DP, Poustka L, Hohmann S, Millenet S, Fröhner JH, Smolka MN, Vaidya N, Walter H, Winterer J, Broulidakis MJ, van Noort BM, Stringaris A, Penttilä J, Grimmer Y, Insensee C, Becker A, Zhang Y, King S, Sinclair J, Schumann G, Schmidt U, Desrivières S |
Journal of affective disorders |
39701465 |
J Affect Disord |
2025 Jun 15 |
https://www.ncbi.nlm.nih.gov/pubmed/39701465 |
| Machine learning models for diagnosis and risk prediction in eating disorders, depression, and alcohol use disorder. |
Desrivières S, Zhang Z, Robinson L, Whelan R, Jollans L, Wang Z, Nees F, Chu C, Bobou M, Du D, Cristea I, Banaschewski T, Barker G, Bokde A, Grigis A, Garavan H, Heinz A, Bruhl R, Martinot JL, Martinot MP, Artiges E, Orfanos DP, Poustka L, Hohmann S, Millenet S, Fröhner J, Smolka M, Vaidya N, Walter H, Winterer J, Broulidakis M, van Noort B, Stringaris A, Penttilä J, Grimmer Y, Insensee C, Becker A, Zhang Y, King S, Sinclair J, Schumann G, Schmidt U |
Research square |
38352452 |
Res Sq |
2024 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/38352452 |
| Examining the association between posttraumatic stress disorder and disruptions in cortical networks identified using data-driven methods. |
Yang J, Huggins AA, Sun D, Baird CL, Haswell CC, Frijling JL, Olff M, van Zuiden M, Koch SBJ, Nawijn L, Veltman DJ, Suarez-Jimenez B, Zhu X, Neria Y, Hudson AR, Mueller SC, Baker JT, Lebois LAM, Kaufman ML, Qi R, Lu GM, Říha P, Rektor I, Dennis EL, Ching CRK, Thomopoulos SI, Salminen LE, Jahanshad N, Thompson PM, Stein DJ, Koopowitz SM, Ipser JC, Seedat S, du Plessis S, van den Heuvel LL, Wang L, Zhu Y, Li G, Sierk A, Manthey A, Walter H, Daniels JK, Schmahl C, Herzog JI, Liberzon I, King A, Angstadt M, Davenport ND, Sponheim SR, Disner SG, Straube T, Hofmann D, Grupe DW, Nitschke JB, Davidson RJ, Larson CL, deRoon-Cassini TA, Blackford JU, Olatunji BO, Gordon EM, May G, Nelson SM, Abdallah CG, Levy I, Harpaz-Rotem I, Krystal JH, Morey RA, Sotiras A |
Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology |
38017161 |
Neuropsychopharmacology |
2024 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/38017161 |
| Using rare genetic mutations to revisit structural brain asymmetry. |
Kopal J, Kumar K, Shafighi K, Saltoun K, Modenato C, Moreau CA, Huguet G, Jean-Louis M, Martin CO, Saci Z, Younis N, Douard E, Jizi K, Beauchamp-Chatel A, Kushan L, Silva AI, van den Bree MBM, Linden DEJ, Owen MJ, Hall J, Lippé S, Draganski B, Sønderby IE, Andreassen OA, Glahn DC, Thompson PM, Bearden CE, Zatorre R, Jacquemont S, Bzdok D |
Nature communications |
38531844 |
Nat Commun |
2024 Mar 26 |
https://www.ncbi.nlm.nih.gov/pubmed/38531844 |
| Gray matter covariations in autism: out-of-sample replication using the ENIGMA autism cohort. |
Mei T, Llera A, Forde NJ, van Rooij D, Floris DL, Beckmann CF, Buitelaar JK |
Molecular autism |
38229192 |
Mol Autism |
2024 Jan 17 |
https://www.ncbi.nlm.nih.gov/pubmed/38229192 |
| Cerebral cortical alterations in adolescent early-onset psychosis: a surface-based morphometry mega-analysis. |
Nerland S, Barth C, Jørgensen KN, Wortinger LA, Castro-Fornieles J, Díaz-Caneja CM, Janssen J, Arango C, Sugranyes G, Baeza I, Piras F, Banaj N, Piras F, Elia S, Vecchio D, Lundberg M, Bohman H, Rund BR, de la Serna E, Fortea A, Tamnes CK, Westlye LT, Smelror RE, Andreou D, Jönsson EG, Kempton MJ, Si S, Kyriakopoulos M, Bearden CE, Laulette K, Pascual-Diaz S, Fett AJ, Karlsgodt KH, Krabbendam L, Kochunov P, Thomopoulos SI, Jahanshad N, James A, Frangou S, Myhre AM, Steen NE, Andreassen OA, Thompson PM, Agartz I |
medRxiv : the preprint server for health sciences |
40492081 |
medRxiv |
2025 May 28 |
https://www.ncbi.nlm.nih.gov/pubmed/40492081 |
| Mirror effect of genomic deletions and duplications on cognitive ability across the human cerebral cortex. |
Kumar K, Kazem S, Huguet G, Engchuan W, Kopal J, Renne T, Shanta O, Thiruvahindrapuram B, MacDonald J, Mollon J, Schultz LM, Knowles EEM, Porteous D, Davies G, Redmond P, Harris S, Cox S, Schumann G, Pausova Z, Greenwood C, Paus T, Scherer S, Almasy L, Sebat J, Glahn D, Dumas G, Jacquemont S |
Research square |
41356361 |
Res Sq |
2025 Nov 28 |
https://www.ncbi.nlm.nih.gov/pubmed/41356361 |
| Lifespan investigation of brain volumetric changes associated with substance use disorders. |
Shi R, Xiang S, Alnæs D, Chen D, Chen Z, Banaschewski T, Barker GJ, Bokde ALW, Desrivières S, Flor H, Garavan H, Gowland P, Grigis A, Heinz A, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Poustka L, Smolka MN, Hohmann S, Vaidya N, Walter H, Whelan R, Schumann G, Sahakian BJ, Westlye LT, Robbins TW, Lin X, Jia T, Feng J, IMAGEN Consortium |
Research square |
40678209 |
Res Sq |
2025 Jun 26 |
https://www.ncbi.nlm.nih.gov/pubmed/40678209 |
| Copy number variants and the tangential expansion of the cerebral cortex. |
Liao Z, Kumar K, Kopal J, Huguet G, Saci Z, Jean-Louis M, Pausova Z, Jurisica I, Bearden CE, IMAGEN Consortium, 16p11.2 European Consortium, Jacquemont S, Paus T |
Nature communications |
39962045 |
Nat Commun |
2025 Feb 17 |
https://www.ncbi.nlm.nih.gov/pubmed/39962045 |
| Classification of Major Depressive Disorder Using Vertex-Wise Brain Sulcal Depth, Curvature, and Thickness with a Deep and a Shallow Learning Model. |
Goya-Maldonado R, Erwin-Grabner T, Zeng LL, Ching CRK, Aleman A, Amod AR, Basgoze Z, Benedetti F, Besteher B, Brosch K, Bülow R, Colle R, Connolly CG, Corruble E, Couvy-Duchesne B, Cullen K, Dannlowski U, Davey CG, Dols A, Ernsting J, Evans JW, Fisch L, Fuentes-Claramonte P, Gonul AS, Gotlib IH, Grabe HJ, Groenewold NA, Grotegerd D, Hahn T, Hamilton JP, Han LKM, Harrison BJ, Ho TC, Jahanshad N, Jamieson AJ, Karuk A, Kircher T, Klimes-Dougan B, Koopowitz SM, Lancaster T, Leenings R, Li M, Linden DEJ, MacMaster FP, Mehler DMA, Meinert S, Melloni E, Mueller BA, Mwangi B, Nenadić I, Ojha A, Okamoto Y, Oudega ML, Penninx BWJH, Poletti S, Pomarol-Clotet E, Portella MJ, Pozzi E, Radua J, Rodríguez-Cano E, Sacchet MD, Salvador R, Schrantee A, Sim K, Soares JC, Solanes A, Stein DJ, Stein F, Stolicyn A, Thomopoulos SI, Toenders YJ, Uyar-Demir A, Vieta E, Vives-Gilabert Y, Völzke H, Walter M, Whalley HC, Whittle S, Winter N, Wittfeld K, Wright MJ, Wu MJ, Yang TT, Zarate C, Veltman DJ, Schmaal L, Thompson PM, ENIGMA Major Depressive Disorder working group |
ArXiv |
39975425 |
ArXiv |
2025 Jan 24 |
https://www.ncbi.nlm.nih.gov/pubmed/39975425 |
| Association between polygenic risk for Major Depression and brain structure in a mega-analysis of 50,975 participants across 11 studies. |
Shen X, Toenders YJ, Han LKM, Weihs A, Alexander N, Andlauer TFM, Brosch K, Forstner AJ, Grotegerd D, Hahn T, Hermesdorf M, Hosten N, Jamalabadi H, Meinert S, Milaneschi Y, Sämann PG, Stein F, Stolicyn A, Teutenberg L, Thng G, Adams MJ, Thomas-Odenthal F, Usemann P, Völker U, Wittfeld K, Herrera-Rivero M, Jiang Y, Tian C, 23andMe Research Team, Groenewold NA, Koopowitz SM, Strike LT, Dannlowski U, Jansen A, Kircher T, Nenadić I, Sim K, Straube B, Völzke H, Stein DJ, Medland SE, Berger K, Grabe HJ, Krug A, McMahon KL, de Zubicaray G, Pozzi E, Veltman DJ, Thomopoulos SI, Jahanshad N, Thompson PM, Schmaal L, McIntosh AM, Whalley HC, ENIGMA MDD working group |
Molecular psychiatry |
40830579 |
Mol Psychiatry |
2026 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/40830579 |
| Neural correlates of human fear conditioning and sources of variability in 2199 individuals. |
Radua J, Savage HS, Vilajosana E, Jamieson A, Abler B, Åhs F, Beckers T, Cardoner N, Cisler JM, Diniz JB, Bach DR, Elsenbruch S, Greening SG, Holt DJ, Kaczkurkin AN, Keil A, Kindt M, Koch K, LaBar KS, Lam CL, Larson CL, Lonsdorf TB, Merz CJ, McLaughlin KA, Neria Y, Pine DS, van Reekum CM, Shackman AJ, Soriano-Mas C, Spoormaker VI, Stout DM, Straube B, Straube T, Tuominen L, Visser RM, Ahumada L, Arolt V, Batistuzzo MC, Bazán PR, Biggs EE, Cano M, Chavarría-Elizondo P, Cooper SE, Dannlowski U, de la Peña-Arteaga V, DeCross SN, Domschke K, Ehlers MR, Graner JL, Hamm AO, Herrmann MJ, Huggins AA, Icenhour A, Juaneda-Seguí A, Junghoefer M, Kircher T, Koelkebeck K, Kuhn M, Labrenz F, Lissek SM, Lotze M, Lueken U, Margraf J, Martínez-Zalacaín I, Moeck R, Morriss J, Ortuño M, Pittig A, Porta-Casteras D, Richter J, Ridderbusch IC, Rief W, Roesmann K, Rosén J, Rußmann AN, Sjouwerman R, Spohrs J, Ströhle A, Suarez-Jimenez B, Ulrich M, Wittchen HU, Zhu X, Waller L, Walter H, Thompson PM, Bas-Hoogendam JM, Groenewold NA, J Stein D, Van der Wee NJ, Dunsmoor JE, Marquand AF, J Harrison B, Fullana MA |
Nature communications |
40849409 |
Nat Commun |
2025 Aug 23 |
https://www.ncbi.nlm.nih.gov/pubmed/40849409 |
| Impulsivity and neuroticism share distinct functional connectivity signatures with alcohol-use risk in youth. |
Cheng A, Lichenstein S, Chaarani B, Liang Q, Babaeianjelodar M, Riley SJ, Luo W, Horien C, Greene AS, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Papadopoulos Orfanos D, Poustka L, Hohmann S, Holz N, Baeuchl C, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Constable RT, Pearlson G, Garavan H, Yip SW |
Molecular psychiatry |
40913110 |
Mol Psychiatry |
2026 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/40913110 |
| Brain morphology mediators of the link between childhood trauma and bipolar disorder: a large-scale international analysis. |
Tozzi L, Dauvermann MR, Corley E, Fernandes A, Kang MJY, Im Y, Nabulsi L, Goya-Maldonado R, Berger K, Hermesdorf M, Blumberg HP, Colic L, Van Rheenen TE, Ringin E, Rossell SL, Karantonis JA, Furlong LS, Kircher T, Stein F, Dannlowski U, Grotegerd D, Soares JC, Wu MJ, Zunta-Soares GB, Mwangi B, Radua J, Vilajosana E, Vieta E, Green MJ, Olie E, Clain G, Benedetti F, Melloni E, Bravi B, Janiri D, Vecchio D, Piras F, Banaj N, Sani G, Roberts G, Fullerton JM, Overs BJ, Mitchell PB, Savitz J, Yatham LN, Houenou J, Leboyer M, Rodrigue A, Glahn DC, Thomopoulos SI, Jahanshad N, Thompson PM, Andreassen OA, Ching CRK, Cannon DM, Quidé Y, ENIGMA Bipolar Disorder Working Group |
medRxiv : the preprint server for health sciences |
41282728 |
medRxiv |
2025 Nov 4 |
https://www.ncbi.nlm.nih.gov/pubmed/41282728 |
| Brain Age in Conduct Disorder:: A Mega-Analysis of the ENIGMA Antisocial Behavior Working Group. |
Dugré JR, Gao Y, Staginnus M, Marsh AA, Kypta-Vivanco A, Cubillo AI, Dietrich A, Bernhard A, Martinelli A, Dykstra AH, Smaragdi A, Sethi A, Bokde ALW, Franke B, Arango C, Boateng CPS, Stadler C, Freitag CM, Townsend CD, Monk CS, Hagan CC, Mitchell C, Dong D, Díaz DE, Brandeis D, Murphy D, Sukhodolsky DG, Sonuga-Barke EJS, Cardinale EM, Viding E, Kohls G, Schumann G, Cornwell H, Phillips H, Westerman HB, Chen H, Sagar-Ouriaghli I, Rogers JC, Buitelaar JK, Martinot JL, Glennon JC, Zhou J, Zhang J, Naaijen J, Castro-Fornieles J, Michalska KJ, Gonzalez-Madruga K, Ibrahim K, Sully K, Berluti K, Konrad K, Lamers K, Mycue LE, Passamonti L, Hyde LW, Oosterling M, Alonso MJP, Stevens MC, Craig M, Rosa-Justicia M, Ploe ML, Holz N, van der Wee NJA, Toschi N, Jabeen N, Raschle NM, Colins OF, Santosh P, Aggensteiner PM, Hoekstra PJ, Ming Q, Wu Q, Jackson RL, Ma R, Blair RJR, Vermeiren R, Pauli R, Roberts R, Burt SA, Bajaj S, Chester SC, Minosse S, Desrivieres S, Banaschewski T, Schulze UME, Chen X, Wang X, Sun X, Jiang Y, Jahanshad N, Thomopoulos SI, Ching CRK, Kang MJY, Thompson PM, Pine DS, Baskin-Sommers A, Cecil CAM, Aghajani M, Fairchild G, ENIGMA Antisocial Behavior Consortium, De Brito SA |
bioRxiv : the preprint server for biology |
41648388 |
bioRxiv |
2026 Jan 21 |
https://www.ncbi.nlm.nih.gov/pubmed/41648388 |
| Whole-genome analyses of whole-brain data: working within an expanded search space. |
Medland SE, Jahanshad N, Neale BM, Thompson PM |
Nature neuroscience |
24866045 |
Nat Neurosci |
2014 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/24866045 |
| The ENIGMA Consortium: large-scale collaborative analyses of neuroimaging and genetic data. |
Thompson PM, Stein JL, Medland SE, Hibar DP, Vasquez AA, Renteria ME, Toro R, Jahanshad N, Schumann G, Franke B, Wright MJ, Martin NG, Agartz I, Alda M, Alhusaini S, Almasy L, Almeida J, Alpert K, Andreasen NC, Andreassen OA, Apostolova LG, Appel K, Armstrong NJ, Aribisala B, Bastin ME, Bauer M, Bearden CE, Bergmann O, Binder EB, Blangero J, Bockholt HJ, Bøen E, Bois C, Boomsma DI, Booth T, Bowman IJ, Bralten J, Brouwer RM, Brunner HG, Brohawn DG, Buckner RL, Buitelaar J, Bulayeva K, Bustillo JR, Calhoun VD, Cannon DM, Cantor RM, Carless MA, Caseras X, Cavalleri GL, Chakravarty MM, Chang KD, Ching CR, Christoforou A, Cichon S, Clark VP, Conrod P, Coppola G, Crespo-Facorro B, Curran JE, Czisch M, Deary IJ, de Geus EJ, den Braber A, Delvecchio G, Depondt C, de Haan L, de Zubicaray GI, Dima D, Dimitrova R, Djurovic S, Dong H, Donohoe G, Duggirala R, Dyer TD, Ehrlich S, Ekman CJ, Elvsåshagen T, Emsell L, Erk S, Espeseth T, Fagerness J, Fears S, Fedko I, Fernández G, Fisher SE, Foroud T, Fox PT, Francks C, Frangou S, Frey EM, Frodl T, Frouin V, Garavan H, Giddaluru S, Glahn DC, Godlewska B, Goldstein RZ, Gollub RL, Grabe HJ, Grimm O, Gruber O, Guadalupe T, Gur RE, Gur RC, Göring HH, Hagenaars S, Hajek T, Hall GB, Hall J, Hardy J, Hartman CA, Hass J, Hatton SN, Haukvik UK, Hegenscheid K, Heinz A, Hickie IB, Ho BC, Hoehn D, Hoekstra PJ, Hollinshead M, Holmes AJ, Homuth G, Hoogman M, Hong LE, Hosten N, Hottenga JJ, Hulshoff Pol HE, Hwang KS, Jack CR Jr, Jenkinson M, Johnston C, Jönsson EG, Kahn RS, Kasperaviciute D, Kelly S, Kim S, Kochunov P, Koenders L, Krämer B, Kwok JB, Lagopoulos J, Laje G, Landen M, Landman BA, Lauriello J, Lawrie SM, Lee PH, Le Hellard S, Lemaître H, Leonardo CD, Li CS, Liberg B, Liewald DC, Liu X, Lopez LM, Loth E, Lourdusamy A, Luciano M, Macciardi F, Machielsen MW, Macqueen GM, Malt UF, Mandl R, Manoach DS, Martinot JL, Matarin M, Mather KA, Mattheisen M, Mattingsdal M, Meyer-Lindenberg A, McDonald C, McIntosh AM, McMahon FJ, McMahon KL, Meisenzahl E, Melle I, Milaneschi Y, Mohnke S, Montgomery GW, Morris DW, Moses EK, Mueller BA, Muñoz Maniega S, Mühleisen TW, Müller-Myhsok B, Mwangi B, Nauck M, Nho K, Nichols TE, Nilsson LG, Nugent AC, Nyberg L, Olvera RL, Oosterlaan J, Ophoff RA, Pandolfo M, Papalampropoulou-Tsiridou M, Papmeyer M, Paus T, Pausova Z, Pearlson GD, Penninx BW, Peterson CP, Pfennig A, Phillips M, Pike GB, Poline JB, Potkin SG, Pütz B, Ramasamy A, Rasmussen J, Rietschel M, Rijpkema M, Risacher SL, Roffman JL, Roiz-Santiañez R, Romanczuk-Seiferth N, Rose EJ, Royle NA, Rujescu D, Ryten M, Sachdev PS, Salami A, Satterthwaite TD, Savitz J, Saykin AJ, Scanlon C, Schmaal L, Schnack HG, Schork AJ, Schulz SC, Schür R, Seidman L, Shen L, Shoemaker JM, Simmons A, Sisodiya SM, Smith C, Smoller JW, Soares JC, Sponheim SR, Sprooten E, Starr JM, Steen VM, Strakowski S, Strike L, Sussmann J, Sämann PG, Teumer A, Toga AW, Tordesillas-Gutierrez D, Trabzuni D, Trost S, Turner J, Van den Heuvel M, van der Wee NJ, van Eijk K, van Erp TG, van Haren NE, van 't Ent D, van Tol MJ, Valdés Hernández MC, Veltman DJ, Versace A, Völzke H, Walker R, Walter H, Wang L, Wardlaw JM, Weale ME, Weiner MW, Wen W, Westlye LT, Whalley HC, Whelan CD, White T, Winkler AM, Wittfeld K, Woldehawariat G, Wolf C, Zilles D, Zwiers MP, Thalamuthu A, Schofield PR, Freimer NB, Lawrence NS, Drevets W, Alzheimer’s Disease Neuroimaging Initiative, EPIGEN Consortium, IMAGEN Consortium, Saguenay Youth Study (SYS) Group |
Brain imaging and behavior |
24399358 |
Brain Imaging Behav |
2014 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/24399358 |
| Efficient multiple-trait association and estimation of genetic correlation using the matrix-variate linear mixed model. |
Furlotte NA, Eskin E |
Genetics |
25724382 |
Genetics |
2015 May |
https://www.ncbi.nlm.nih.gov/pubmed/25724382 |
| A Transformation Similarity Constraint for Groupwise Nonlinear Registration in Longitudinal Neuro Imaging Studies. |
Fleishman GM, Gutman BA, Fletcher PT, Thompson P |
Proceedings of SPIE--the International Society for Optical Engineering |
25914796 |
Proc SPIE Int Soc Opt Eng |
2015 Mar 20 |
https://www.ncbi.nlm.nih.gov/pubmed/25914796 |
| Comparison of nine tractography algorithms for detecting abnormal structural brain networks in Alzheimer's disease. |
Zhan L, Zhou J, Wang Y, Jin Y, Jahanshad N, Prasad G, Nir TM, Leonardo CD, Ye J, Thompson PM, For The Alzheimer's Disease Neuroimaging Initiative |
Frontiers in aging neuroscience |
25926791 |
Front Aging Neurosci |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/25926791 |
| Abnormalities in cortical gray matter density in borderline personality disorder. |
Rossi R, Lanfredi M, Pievani M, Boccardi M, Rasser PE, Thompson PM, Cavedo E, Cotelli M, Rosini S, Beneduce R, Bignotti S, Magni LR, Rillosi L, Magnaldi S, Cobelli M, Rossi G, Frisoni GB |
European psychiatry : the journal of the Association of European Psychiatrists |
25561291 |
Eur Psychiatry |
2015 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/25561291 |
| Heritability of the network architecture of intrinsic brain functional connectivity. |
Sinclair B, Hansell NK, Blokland GA, Martin NG, Thompson PM, Breakspear M, de Zubicaray GI, Wright MJ, McMahon KL |
NeuroImage |
26226088 |
Neuroimage |
2015 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26226088 |
| 7T Multi-shell Hybrid Diffusion Imaging (HYDI) for Mapping Brain Connectivity in Mice. |
Daianu M, Jahanshad N, Villalon-Reina JE, Prasad G, Jacobs RE, Barnes S, Zlokovic BV, Montagne A, Thompson PM |
Proceedings of SPIE--the International Society for Optical Engineering |
25859293 |
Proc SPIE Int Soc Opt Eng |
2015 Mar 20 |
https://www.ncbi.nlm.nih.gov/pubmed/25859293 |
| Effects of changing from non-accelerated to accelerated MRI for follow-up in brain atrophy measurement. |
Leung KK, Malone IM, Ourselin S, Gunter JL, Bernstein MA, Thompson PM, Jack CR Jr, Weiner MW, Fox NC, Alzheimer's Disease Neuroimaging Initiative |
NeuroImage |
25481794 |
Neuroimage |
2015 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/25481794 |
| Mapping ventricular expansion onto cortical gray matter in older adults. |
Madsen SK, Gutman BA, Joshi SH, Toga AW, Jack CR Jr, Weiner MW, Thompson PM, Alzheimer's Disease Neuroimaging Initiative (ADNI) |
Neurobiology of aging |
25311280 |
Neurobiol Aging |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25311280 |
| Serum cholesterol and variant in cholesterol-related gene CETP predict white matter microstructure. |
Warstadt NM, Dennis EL, Jahanshad N, Kohannim O, Nir TM, McMahon KL, de Zubicaray GI, Montgomery GW, Henders AK, Martin NG, Whitfield JB, Jack CR Jr, Bernstein MA, Weiner MW, Toga AW, Wright MJ, Thompson PM, Alzheimer's Disease Neuroimaging Initiative (ADNI) |
Neurobiology of aging |
24997672 |
Neurobiol Aging |
2014 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/24997672 |
| Occipital sources of resting-state alpha rhythms are related to local gray matter density in subjects with amnesic mild cognitive impairment and Alzheimer's disease. |
Babiloni C, Del Percio C, Boccardi M, Lizio R, Lopez S, Carducci F, Marzano N, Soricelli A, Ferri R, Triggiani AI, Prestia A, Salinari S, Rasser PE, Basar E, Famà F, Nobili F, Yener G, Emek-Savaş DD, Gesualdo L, Mundi C, Thompson PM, Rossini PM, Frisoni GB |
Neurobiology of aging |
25442118 |
Neurobiol Aging |
2015 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/25442118 |
| Diffusion weighted imaging-based maximum density path analysis and classification of Alzheimer's disease. |
Nir TM, Villalon-Reina JE, Prasad G, Jahanshad N, Joshi SH, Toga AW, Bernstein MA, Jack CR Jr, Weiner MW, Thompson PM, Alzheimer's Disease Neuroimaging Initiative (ADNI) |
Neurobiology of aging |
25444597 |
Neurobiol Aging |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25444597 |
| Does MRI scan acceleration affect power to track brain change? |
Ching CR, Hua X, Hibar DP, Ward CP, Gunter JL, Bernstein MA, Jack CR Jr, Weiner MW, Thompson PM, Alzheimer's Disease Neuroimaging Initiative |
Neurobiology of aging |
25444601 |
Neurobiol Aging |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25444601 |
| Connectivity network measures predict volumetric atrophy in mild cognitive impairment. |
Nir TM, Jahanshad N, Toga AW, Bernstein MA, Jack CR Jr, Weiner MW, Thompson PM, Alzheimer's Disease Neuroimaging Initiative (ADNI) |
Neurobiology of aging |
25444606 |
Neurobiol Aging |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25444606 |
| The common genetic influence over processing speed and white matter microstructure: Evidence from the Old Order Amish and Human Connectome Projects. |
Kochunov P, Thompson PM, Winkler A, Morrissey M, Fu M, Coyle TR, Du X, Muellerklein F, Savransky A, Gaudiot C, Sampath H, Eskandar G, Jahanshad N, Patel B, Rowland L, Nichols TE, O'Connell JR, Shuldiner AR, Mitchell BD, Hong LE |
NeuroImage |
26499807 |
Neuroimage |
2016 Jan 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26499807 |
| Cracking the brain's genetic code. |
Thompson PM |
Proceedings of the National Academy of Sciences of the United States of America |
26582794 |
Proc Natl Acad Sci U S A |
2015 Dec 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26582794 |
| Genes influence the amplitude and timing of brain hemodynamic responses. |
Shan ZY, Vinkhuyzen AAE, Thompson PM, McMahon KL, Blokland GAM, de Zubicaray GI, Calhoun V, Martin NG, Visscher PM, Wright MJ, Reutens DC |
NeuroImage |
26375212 |
Neuroimage |
2016 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26375212 |
| Disrupted rich club network in behavioral variant frontotemporal dementia and early-onset Alzheimer's disease. |
Daianu M, Mezher A, Mendez MF, Jahanshad N, Jimenez EE, Thompson PM |
Human brain mapping |
26678225 |
Hum Brain Mapp |
2016 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/26678225 |
| Characterising resting-state functional connectivity in a large sample of adults with ADHD. |
Mostert JC, Shumskaya E, Mennes M, Onnink AM, Hoogman M, Kan CC, Arias Vasquez A, Buitelaar J, Franke B, Norris DG |
Progress in neuro-psychopharmacology & biological psychiatry |
26825495 |
Prog Neuropsychopharmacol Biol Psychiatry |
2016 Jun 3 |
https://www.ncbi.nlm.nih.gov/pubmed/26825495 |
| Random Forest Classification of Depression Status Based On Subcortical Brain Morphometry Following Electroconvulsive Therapy. |
Wade BS, Joshi SH, Pirnia T, Leaver AM, Woods RP, Thompson PM, Espinoza R, Narr KL |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413200 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413200 |
| FEATURE SELECTION IMPROVES THE ACCURACY OF CLASSIFYING ALZHEIMER DISEASE USING DIFFUSION TENSOR IMAGES. |
Demirhan A, Nir TM, Zavaliangos-Petropulu A, Jack CR Jr, Weiner MW, Bernstein MA, Thompson PM, Jahanshad N, Alzheimer’s Disease Neuroimaging Initiative (ADNI) |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413201 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413201 |
| Boosting Classification Accuracy of Diffusion MRI Derived Brain Networks for the Subtypes of Mild Cognitive Impairment Using Higher Order Singular Value Decomposition. |
Zhan L, Liu Y, Zhou J, Ye J, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413202 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413202 |
| GENETIC ANALYSIS OF STRUCTURAL BRAIN CONNECTIVITY USING DICCCOL MODELS OF DIFFUSION MRI IN 522 TWINS. |
Zhu D, Zhan L, Faskowitz J, Daianu M, Jahanshad N, de Zubicaray GI, McMahon KL, Martin NG, Wright MJ, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413210 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413210 |
| Medial Demons Registration Localizes The Degree of Genetic Influence Over Subcortical Shape Variability: An N= 1480 Meta-Analysis. |
Gutman BA, Jahanshad N, Ching CR, Wang Y, Kochunov PV, Nichols TE, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413211 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413211 |
| Neurocognitive Deficits in Attention-Deficit/Hyperactivity Disorder With and Without Comorbid Oppositional Defiant Disorder. |
Noordermeer SDS, Luman M, Buitelaar JK, Hartman CA, Hoekstra PJ, Franke B, Faraone SV, Heslenfeld DJ, Oosterlaan J |
Journal of attention disorders |
26486602 |
J Atten Disord |
2020 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/26486602 |
| Accounting for Population Structure in Gene-by-Environment Interactions in Genome-Wide Association Studies Using Mixed Models. |
Sul JH, Bilow M, Yang WY, Kostem E, Furlotte N, He D, Eskin E |
PLoS genetics |
26943367 |
PLoS Genet |
2016 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/26943367 |
| Age, APOE and sex: Triad of risk of Alzheimer's disease. |
Riedel BC, Thompson PM, Brinton RD |
The Journal of steroid biochemistry and molecular biology |
26969397 |
J Steroid Biochem Mol Biol |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26969397 |
| Brain structural changes following adaptive cognitive training assessed by Tensor-Based Morphometry (TBM). |
Colom R, Hua X, Martínez K, Burgaleta M, Román FJ, Gunter JL, Carmona S, Jaeggi SM, Thompson PM |
Neuropsychologia |
27477628 |
Neuropsychologia |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/27477628 |
| Blockwise Human Brain Network Visual Comparison Using NodeTrix Representation. |
Yang X, Shi L, Daianu M, Tong H, Liu Q, Thompson P |
IEEE transactions on visualization and computer graphics |
27514058 |
IEEE Trans Vis Comput Graph |
2017 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/27514058 |
| Disentangling the autism-anxiety overlap: fMRI of reward processing in a community-based longitudinal study. |
Mikita N, Simonoff E, Pine DS, Goodman R, Artiges E, Banaschewski T, Bokde AL, Bromberg U, Büchel C, Cattrell A, Conrod PJ, Desrivières S, Flor H, Frouin V, Gallinat J, Garavan H, Heinz A, Ittermann B, Jurk S, Martinot JL, Paillère Martinot ML, Nees F, Papadopoulos Orfanos D, Paus T, Poustka L, Smolka MN, Walter H, Whelan R, Schumann G, Stringaris A |
Translational psychiatry |
27351599 |
Transl Psychiatry |
2016 Jun 28 |
https://www.ncbi.nlm.nih.gov/pubmed/27351599 |
| Integrated analysis of gray and white matter alterations in attention-deficit/hyperactivity disorder. |
Francx W, Llera A, Mennes M, Zwiers MP, Faraone SV, Oosterlaan J, Heslenfeld D, Hoekstra PJ, Hartman CA, Franke B, Buitelaar JK, Beckmann CF |
NeuroImage. Clinical |
27298764 |
Neuroimage Clin |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27298764 |
| Exome chip analyses in adult attention deficit hyperactivity disorder. |
Zayats T, Jacobsen KK, Kleppe R, Jacob CP, Kittel-Schneider S, Ribasés M, Ramos-Quiroga JA, Richarte V, Casas M, Mota NR, Grevet EH, Klein M, Corominas J, Bralten J, Galesloot T, Vasquez AA, Herms S, Forstner AJ, Larsson H, Breen G, Asherson P, Gross-Lesch S, Lesch KP, Cichon S, Gabrielsen MB, Holmen OL, Bau CH, Buitelaar J, Kiemeney L, Faraone SV, Cormand B, Franke B, Reif A, Haavik J, Johansson S |
Translational psychiatry |
27754487 |
Transl Psychiatry |
2016 Oct 18 |
https://www.ncbi.nlm.nih.gov/pubmed/27754487 |
| Interplay between stress response genes associated with attention-deficit hyperactivity disorder and brain volume. |
van der Meer D, Hoekstra PJ, Bralten J, van Donkelaar M, Heslenfeld DJ, Oosterlaan J, Faraone SV, Franke B, Buitelaar JK, Hartman CA |
Genes, brain, and behavior |
27391809 |
Genes Brain Behav |
2016 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/27391809 |
| Volumetric and shape analyses of subcortical structures in United States service members with mild traumatic brain injury. |
Tate DF, Wade BS, Velez CS, Drennon AM, Bolzenius J, Gutman BA, Thompson PM, Lewis JD, Wilde EA, Bigler ED, Shenton ME, Ritter JL, York GE |
Journal of neurology |
27435967 |
J Neurol |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/27435967 |
| Attention-Deficit/Hyperactivity Disorder symptoms coincide with altered striatal connectivity. |
Oldehinkel M, Beckmann CF, Pruim RH, van Oort ES, Franke B, Hartman CA, Hoekstra PJ, Oosterlaan J, Heslenfeld D, Buitelaar JK, Mennes M |
Biological psychiatry. Cognitive neuroscience and neuroimaging |
27812554 |
Biol Psychiatry Cogn Neurosci Neuroimaging |
2016 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/27812554 |
| Discovering Single Nucleotide Polymorphisms Regulating Human Gene Expression Using Allele Specific Expression from RNA-seq Data. |
Kang EY, Martin LJ, Mangul S, Isvilanonda W, Zou J, Ben-David E, Han B, Lusis AJ, Shifman S, Eskin E |
Genetics |
27765809 |
Genetics |
2016 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/27765809 |
| Effects of dopaminergic genes, prenatal adversities, and their interaction on attention-deficit/hyperactivity disorder and neural correlates of response inhibition. |
van der Meer D, Hartman CA, van Rooij D, Franke B, Heslenfeld DJ, Oosterlaan J, Faraone SV, Buitelaar JK, Hoekstra PJ |
Journal of psychiatry & neuroscience : JPN |
28234207 |
J Psychiatry Neurosci |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28234207 |
| Relationship of a common OXTR gene variant to brain structure and default mode network function in healthy humans. |
Wang J, Braskie MN, Hafzalla GW, Faskowitz J, McMahon KL, de Zubicaray GI, Wright MJ, Yu C, Thompson PM |
NeuroImage |
28017919 |
Neuroimage |
2017 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/28017919 |
| Identifying disordered eating behaviours in adolescents: how do parent and adolescent reports differ by sex and age? |
Bartholdy S, Allen K, Hodsoll J, O'Daly OG, Campbell IC, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Conrod PJ, Desrivières S, Flor H, Frouin V, Gallinat J, Garavan H, Heinz A, Ittermann B, Martinot JL, Artiges E, Nees F, Orfanos DP, Paus T, Poustka L, Smolka MN, Mennigen E, Walter H, Whelan R, Schumann G, Schmidt U |
European child & adolescent psychiatry |
28050706 |
Eur Child Adolesc Psychiatry |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28050706 |
| Improving data availability for brain image biobanking in healthy subjects: Practice-based suggestions from an international multidisciplinary working group. |
BRAINS (Brain Imaging in Normal Subjects) Expert Working Group, Shenkin SD, Pernet C, Nichols TE, Poline JB, Matthews PM, van der Lugt A, Mackay C, Lanyon L, Mazoyer B, Boardman JP, Thompson PM, Fox N, Marcus DS, Sheikh A, Cox SR, Anblagan D, Job DE, Dickie DA, Rodriguez D, Wardlaw JM |
NeuroImage |
28232121 |
Neuroimage |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28232121 |
| Novel genetic loci associated with hippocampal volume. |
Hibar DP, Adams HHH, Jahanshad N, Chauhan G, Stein JL, Hofer E, Renteria ME, Bis JC, Arias-Vasquez A, Ikram MK, Desrivières S, Vernooij MW, Abramovic L, Alhusaini S, Amin N, Andersson M, Arfanakis K, Aribisala BS, Armstrong NJ, Athanasiu L, Axelsson T, Beecham AH, Beiser A, Bernard M, Blanton SH, Bohlken MM, Boks MP, Bralten J, Brickman AM, Carmichael O, Chakravarty MM, Chen Q, Ching CRK, Chouraki V, Cuellar-Partida G, Crivello F, Den Braber A, Doan NT, Ehrlich S, Giddaluru S, Goldman AL, Gottesman RF, Grimm O, Griswold ME, Guadalupe T, Gutman BA, Hass J, Haukvik UK, Hoehn D, Holmes AJ, Hoogman M, Janowitz D, Jia T, Jørgensen KN, Karbalai N, Kasperaviciute D, Kim S, Klein M, Kraemer B, Lee PH, Liewald DCM, Lopez LM, Luciano M, Macare C, Marquand AF, Matarin M, Mather KA, Mattheisen M, McKay DR, Milaneschi Y, Muñoz Maniega S, Nho K, Nugent AC, Nyquist P, Loohuis LMO, Oosterlaan J, Papmeyer M, Pirpamer L, Pütz B, Ramasamy A, Richards JS, Risacher SL, Roiz-Santiañez R, Rommelse N, Ropele S, Rose EJ, Royle NA, Rundek T, Sämann PG, Saremi A, Satizabal CL, Schmaal L, Schork AJ, Shen L, Shin J, Shumskaya E, Smith AV, Sprooten E, Strike LT, Teumer A, Tordesillas-Gutierrez D, Toro R, Trabzuni D, Trompet S, Vaidya D, Van der Grond J, Van der Lee SJ, Van der Meer D, Van Donkelaar MMJ, Van Eijk KR, Van Erp TGM, Van Rooij D, Walton E, Westlye LT, Whelan CD, Windham BG, Winkler AM, Wittfeld K, Woldehawariat G, Wolf C, Wolfers T, Yanek LR, Yang J, Zijdenbos A, Zwiers MP, Agartz I, Almasy L, Ames D, Amouyel P, Andreassen OA, Arepalli S, Assareh AA, Barral S, Bastin ME, Becker DM, Becker JT, Bennett DA, Blangero J, van Bokhoven H, Boomsma DI, Brodaty H, Brouwer RM, Brunner HG, Buckner RL, Buitelaar JK, Bulayeva KB, Cahn W, Calhoun VD, Cannon DM, Cavalleri GL, Cheng CY, Cichon S, Cookson MR, Corvin A, Crespo-Facorro B, Curran JE, Czisch M, Dale AM, Davies GE, De Craen AJM, De Geus EJC, De Jager PL, De Zubicaray GI, Deary IJ, Debette S, DeCarli C, Delanty N, Depondt C, DeStefano A, Dillman A, Djurovic S, Donohoe G, Drevets WC, Duggirala R, Dyer TD, Enzinger C, Erk S, Espeseth T, Fedko IO, Fernández G, Ferrucci L, Fisher SE, Fleischman DA, Ford I, Fornage M, Foroud TM, Fox PT, Francks C, Fukunaga M, Gibbs JR, Glahn DC, Gollub RL, Göring HHH, Green RC, Gruber O, Gudnason V, Guelfi S, Håberg AK, Hansell NK, Hardy J, Hartman CA, Hashimoto R, Hegenscheid K, Heinz A, Le Hellard S, Hernandez DG, Heslenfeld DJ, Ho BC, Hoekstra PJ, Hoffmann W, Hofman A, Holsboer F, Homuth G, Hosten N, Hottenga JJ, Huentelman M, Hulshoff Pol HE, Ikeda M, Jack CR Jr, Jenkinson M, Johnson R, Jönsson EG, Jukema JW, Kahn RS, Kanai R, Kloszewska I, Knopman DS, Kochunov P, Kwok JB, Lawrie SM, Lemaître H, Liu X, Longo DL, Lopez OL, Lovestone S, Martinez O, Martinot JL, Mattay VS, McDonald C, McIntosh AM, McMahon FJ, McMahon KL, Mecocci P, Melle I, Meyer-Lindenberg A, Mohnke S, Montgomery GW, Morris DW, Mosley TH, Mühleisen TW, Müller-Myhsok B, Nalls MA, Nauck M, Nichols TE, Niessen WJ, Nöthen MM, Nyberg L, Ohi K, Olvera RL, Ophoff RA, Pandolfo M, Paus T, Pausova Z, Penninx BWJH, Pike GB, Potkin SG, Psaty BM, Reppermund S, Rietschel M, Roffman JL, Romanczuk-Seiferth N, Rotter JI, Ryten M, Sacco RL, Sachdev PS, Saykin AJ, Schmidt R, Schmidt H, Schofield PR, Sigursson S, Simmons A, Singleton A, Sisodiya SM, Smith C, Smoller JW, Soininen H, Steen VM, Stott DJ, Sussmann JE, Thalamuthu A, Toga AW, Traynor BJ, Troncoso J, Tsolaki M, Tzourio C, Uitterlinden AG, Hernández MCV, Van der Brug M, van der Lugt A, van der Wee NJA, Van Haren NEM, van 't Ent D, Van Tol MJ, Vardarajan BN, Vellas B, Veltman DJ, Völzke H, Walter H, Wardlaw JM, Wassink TH, Weale ME, Weinberger DR, Weiner MW, Wen W, Westman E, White T, Wong TY, Wright CB, Zielke RH, Zonderman AB, Martin NG, Van Duijn CM, Wright MJ, Longstreth WT, Schumann G, Grabe HJ, Franke B, Launer LJ, Medland SE, Seshadri S, Thompson PM, Ikram MA |
Nature communications |
28098162 |
Nat Commun |
2017 Jan 18 |
https://www.ncbi.nlm.nih.gov/pubmed/28098162 |
| Diverging white matter trajectories in children after traumatic brain injury: The RAPBI study. |
Dennis EL, Rashid F, Ellis MU, Babikian T, Vlasova RM, Villalon-Reina JE, Jin Y, Olsen A, Mink R, Babbitt C, Johnson J, Giza CC, Thompson PM, Asarnow RF |
Neurology |
28298549 |
Neurology |
2017 Apr 11 |
https://www.ncbi.nlm.nih.gov/pubmed/28298549 |
| Heritability of the shape of subcortical brain structures in the general population. |
Roshchupkin GV, Gutman BA, Vernooij MW, Jahanshad N, Martin NG, Hofman A, McMahon KL, van der Lee SJ, van Duijn CM, de Zubicaray GI, Uitterlinden AG, Wright MJ, Niessen WJ, Thompson PM, Ikram MA, Adams HHH |
Nature communications |
27976715 |
Nat Commun |
2016 Dec 15 |
https://www.ncbi.nlm.nih.gov/pubmed/27976715 |
| Childhood adversity impacts on brain subcortical structures relevant to depression. |
Frodl T, Janowitz D, Schmaal L, Tozzi L, Dobrowolny H, Stein DJ, Veltman DJ, Wittfeld K, van Erp TGM, Jahanshad N, Block A, Hegenscheid K, Völzke H, Lagopoulos J, Hatton SN, Hickie IB, Frey EM, Carballedo A, Brooks SJ, Vuletic D, Uhlmann A, Veer IM, Walter H, Schnell K, Grotegerd D, Arolt V, Kugel H, Schramm E, Konrad C, Zurowski B, Baune BT, van der Wee NJA, van Tol MJ, Penninx BWJH, Thompson PM, Hibar DP, Dannlowski U, Grabe HJ |
Journal of psychiatric research |
27918926 |
J Psychiatr Res |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/27918926 |
| Brain imaging genetics in ADHD and beyond - Mapping pathways from gene to disorder at different levels of complexity. |
Klein M, Onnink M, van Donkelaar M, Wolfers T, Harich B, Shi Y, Dammers J, Arias-Vásquez A, Hoogman M, Franke B |
Neuroscience and biobehavioral reviews |
28159610 |
Neurosci Biobehav Rev |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/28159610 |
| The significance of negative correlations in brain connectivity. |
Zhan L, Jenkins LM, Wolfson OE, GadElkarim JJ, Nocito K, Thompson PM, Ajilore OA, Chung MK, Leow AD |
The Journal of comparative neurology |
28675490 |
J Comp Neurol |
2017 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/28675490 |
| Overdominant Effect of a CHRNA4 Polymorphism on Cingulo-Opercular Network Activity and Cognitive Control. |
Sadaghiani S, Ng B, Altmann A, Poline JB, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Burke Quinlan E, Conrod P, Desrivières S, Flor H, Frouin V, Garavan H, Gowland P, Gallinat J, Heinz A, Ittermann B, Martinot JL, Paillère Martinot ML, Lemaitre H, Nees F, Papadopoulos Orfanos D, Paus T, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Napolioni V, Greicius M |
The Journal of neuroscience : the official journal of the Society for Neuroscience |
28877969 |
J Neurosci |
2017 Oct 4 |
https://www.ncbi.nlm.nih.gov/pubmed/28877969 |
| Enhancing Diffusion MRI Measures By Integrating Grey and White Matter Morphometry With Hyperbolic Wasserstein Distance. |
Zhang W, Shi J, Yu J, Zhan L, Thompson PM, Wang Y |
Proceedings. IEEE International Symposium on Biomedical Imaging |
28936280 |
Proc IEEE Int Symp Biomed Imaging |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28936280 |
| Ventromedial Prefrontal Volume in Adolescence Predicts Hyperactive/Inattentive Symptoms in Adulthood. |
Albaugh MD, Ivanova M, Chaarani B, Orr C, Allgaier N, Althoff RR, D' Alberto N, Hudson K, Mackey S, Spechler PA, Banaschewski T, Brühl R, Bokde ALW, Bromberg U, Büchel C, Cattrell A, Conrod PJ, Desrivières S, Flor H, Frouin V, Gallinat J, Goodman R, Gowland P, Grimmer Y, Heinz A, Kappel V, Martinot JL, Martinot MP, Nees F, Papadopoulos Orfanos D, Penttilä J, Poustka L, Paus T, Smolka MN, Struve M, Walter H, Whelan R, Schumann G, Garavan H, Potter AS |
Cerebral cortex (New York, N.Y. : 1991) |
29912404 |
Cereb Cortex |
2019 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29912404 |
| Mapping cortical brain asymmetry in 17,141 healthy individuals worldwide via the ENIGMA Consortium. |
Kong XZ, Mathias SR, Guadalupe T, ENIGMA Laterality Working Group, Glahn DC, Franke B, Crivello F, Tzourio-Mazoyer N, Fisher SE, Thompson PM, Francks C |
Proceedings of the National Academy of Sciences of the United States of America |
29764998 |
Proc Natl Acad Sci U S A |
2018 May 29 |
https://www.ncbi.nlm.nih.gov/pubmed/29764998 |
| Extending the Construct Network of Trait Disinhibition to the Neuroimaging Domain: Validation of a Bridging Scale for Use in the European IMAGEN Project. |
Brislin SJ, Patrick CJ, Flor H, Nees F, Heinrich A, Drislane LE, Yancey JR, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Desrivières S, Frouin V, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Papadopoulos Orfanos D, Poustka L, Fröhner JH, Smolka MN, Walter H, Whelan R, Conrod P, Stringaris A, Struve M, van Noort B, Grimmer Y, Fadai T, Schumann G, Foell J |
Assessment |
29557190 |
Assessment |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29557190 |
| Whole Brain Magnetic Resonance Spectroscopic Determinants of Functional Outcomes in Pediatric Moderate/Severe Traumatic Brain Injury. |
Babikian T, Alger JR, Ellis-Blied MU, Giza CC, Dennis E, Olsen A, Mink R, Babbitt C, Johnson J, Thompson PM, Asarnow RF |
Journal of neurotrauma |
29649959 |
J Neurotrauma |
2018 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/29649959 |
| ENIGMA-Viewer: interactive visualization strategies for conveying effect sizes in meta-analysis. |
Zhang G, Kochunov P, Hong E, Kelly S, Whelan C, Jahanshad N, Thompson P, Chen J |
BMC bioinformatics |
28617224 |
BMC Bioinformatics |
2017 Jun 6 |
https://www.ncbi.nlm.nih.gov/pubmed/28617224 |
| Integration of routine QA data into mega-analysis may improve quality and sensitivity of multisite diffusion tensor imaging studies. |
Kochunov P, Dickie EW, Viviano JD, Turner J, Kingsley PB, Jahanshad N, Thompson PM, Ryan MC, Fieremans E, Novikov D, Veraart J, Hong EL, Malhotra AK, Buchanan RW, Chavez S, Voineskos AN |
Human brain mapping |
29181875 |
Hum Brain Mapp |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29181875 |
| Graph theoretical approaches towards understanding differences in frontoparietal and default mode networks in Autism. |
Riedel BC, Jahanshad N, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
29201281 |
Proc IEEE Int Symp Biomed Imaging |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29201281 |
| THE IMPACT OF MATCHING FUNCTIONAL ON ATROPHY MEASUREMENT FROM GEODESIC SHOOTING IN DIFFEOMORPHISMS. |
Fleishman GM, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
29201282 |
Proc IEEE Int Symp Biomed Imaging |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29201282 |
| Leveraging genome characteristics to improve gene discovery for putamen subcortical brain structure. |
Chen CH, Wang Y, Lo MT, Schork A, Fan CC, Holland D, Kauppi K, Smeland OB, Djurovic S, Sanyal N, Hibar DP, Thompson PM, Thompson WK, Andreassen OA, Dale AM |
Scientific reports |
29147026 |
Sci Rep |
2017 Nov 16 |
https://www.ncbi.nlm.nih.gov/pubmed/29147026 |
| Neural circuitry underlying sustained attention in healthy adolescents and in ADHD symptomatology. |
O'Halloran L, Cao Z, Ruddy K, Jollans L, Albaugh MD, Aleni A, Potter AS, Vahey N, Banaschewski T, Hohmann S, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Desrivières S, Flor H, Frouin V, Gowland P, Heinz A, Ittermann B, Nees F, Orfanos DP, Paus T, Smolka MN, Walter H, Schumann G, Garavan H, Kelly C, Whelan R |
NeuroImage |
29274748 |
Neuroimage |
2018 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29274748 |
| Structural Neuroimaging of Anorexia Nervosa: Future Directions in the Quest for Mechanisms Underlying Dynamic Alterations. |
King JA, Frank GKW, Thompson PM, Ehrlich S |
Biological psychiatry |
28967386 |
Biol Psychiatry |
2018 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28967386 |
| Positive symptoms associate with cortical thinning in the superior temporal gyrus via the ENIGMA Schizophrenia consortium. |
Walton E, Hibar DP, van Erp TG, Potkin SG, Roiz-Santiañez R, Crespo-Facorro B, Suarez-Pinilla P, Van Haren NE, de Zwarte SM, Kahn RS, Cahn W, Doan NT, Jørgensen KN, Gurholt TP, Agartz I, Andreassen OA, Westlye LT, Melle I, Berg AO, Mørch-Johnsen L, Faerden A, Flyckt L, Fatouros-Bergman H, Karolinska Schizophrenia Project Consortium (KaSP), Jönsson EG, Hashimoto R, Yamamori H, Fukunaga M, Preda A, De Rossi P, Piras F, Banaj N, Ciullo V, Spalletta G, Gur RE, Gur RC, Wolf DH, Satterthwaite TD, Beard LM, Sommer IE, Koops S, Gruber O, Richter A, Krämer B, Kelly S, Donohoe G, McDonald C, Cannon DM, Corvin A, Gill M, Di Giorgio A, Bertolino A, Lawrie S, Nickson T, Whalley HC, Neilson E, Calhoun VD, Thompson PM, Turner JA, Ehrlich S |
Acta psychiatrica Scandinavica |
28369804 |
Acta Psychiatr Scand |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/28369804 |
| Emerging Global Initiatives in Neurogenetics: The Enhancing Neuroimaging Genetics through Meta-analysis (ENIGMA) Consortium. |
Bearden CE, Thompson PM |
Neuron |
28426957 |
Neuron |
2017 Apr 19 |
https://www.ncbi.nlm.nih.gov/pubmed/28426957 |
| Genetic influences on individual differences in longitudinal changes in global and subcortical brain volumes: Results of the ENIGMA plasticity working group. |
Brouwer RM, Panizzon MS, Glahn DC, Hibar DP, Hua X, Jahanshad N, Abramovic L, de Zubicaray GI, Franz CE, Hansell NK, Hickie IB, Koenis MMG, Martin NG, Mather KA, McMahon KL, Schnack HG, Strike LT, Swagerman SC, Thalamuthu A, Wen W, Gilmore JH, Gogtay N, Kahn RS, Sachdev PS, Wright MJ, Boomsma DI, Kremen WS, Thompson PM, Hulshoff Pol HE |
Human brain mapping |
28580697 |
Hum Brain Mapp |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/28580697 |
| Associations of the Intellectual Disability Gene MYT1L with Helix-Loop-Helix Gene Expression, Hippocampus Volume and Hippocampus Activation During Memory Retrieval. |
Kepa A, Martinez Medina L, Erk S, Srivastava DP, Fernandes A, Toro R, Lévi S, Ruggeri B, Fernandes C, Degenhardt F, Witt SH, Meyer-Lindenberg A, Poncer JC, Martinot JL, Paillère Martinot ML, Müller CP, Heinz A, Walter H, Schumann G, Desrivières S |
Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology |
28470180 |
Neuropsychopharmacology |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/28470180 |
| Continuous representations of brain connectivity using spatial point processes. |
Moyer D, Gutman BA, Faskowitz J, Jahanshad N, Thompson PM |
Medical image analysis |
28487128 |
Med Image Anal |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28487128 |
| COMT Val158Met Polymorphism and Social Impairment Interactively Affect Attention-Deficit Hyperactivity Symptoms in Healthy Adolescents. |
Millenet SK, Nees F, Heintz S, Bach C, Frank J, Vollstädt-Klein S, Bokde A, Bromberg U, Büchel C, Quinlan EB, Desrivières S, Fröhner J, Flor H, Frouin V, Garavan H, Gowland P, Heinz A, Ittermann B, Lemaire H, Martinot JL, Martinot MP, Papadoulos DO, Paus T, Poustka L, Rietschel M, Smolka MN, Walter H, Whelan R, Schumann G, Banaschewski T, Hohmann S |
Frontiers in genetics |
30108607 |
Front Genet |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30108607 |
| Mapping adolescent reward anticipation, receipt, and prediction error during the monetary incentive delay task. |
Cao Z, Bennett M, Orr C, Icke I, Banaschewski T, Barker GJ, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Desrivières S, Flor H, Frouin V, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Schumann G, Whelan R, IMAGEN Consortium |
Human brain mapping |
30240509 |
Hum Brain Mapp |
2019 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/30240509 |
| ENIGMA MILITARY BRAIN INJURY: A COORDINATED META-ANALYSIS OF DIFFUSION MRI FROM MULTIPLE COHORTS. |
Dennis EL, Wilde EA, Newsome MR, Scheibel RS, Troyanskaya M, Velez C, Wade BSC, Drennon AM, York GE, Bigler ED, Abildskov TJ, Taylor BA, Jaramillo CA, Eapen B, Belanger H, Gupta V, Morey R, Haswell C, Levin HS, Hinds SR 2nd, Walker WC, Thompson PM, Tate DF |
Proceedings. IEEE International Symposium on Biomedical Imaging |
30034577 |
Proc IEEE Int Symp Biomed Imaging |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30034577 |
| Improving Imputation Accuracy by Inferring Causal Variants in Genetic Studies. |
Wu Y, Hormozdiari F, Joo JWJ, Eskin E |
Journal of computational biology : a journal of computational molecular cell biology |
30272994 |
J Comput Biol |
2019 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30272994 |
| Cross-tissue eQTL enrichment of associations in schizophrenia. |
Bettella F, Brown AA, Smeland OB, Wang Y, Witoelar A, Buil Demur AA, Thompson WK, Zuber V, Dale AM, Djurovic S, Andreassen OA |
PloS one |
30188921 |
PLoS One |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30188921 |
| Beyond the Global Brain Differences: Intraindividual Variability Differences in 1q21.1 Distal and 15q11.2 BP1-BP2 Deletion Carriers. |
Boen R, Kaufmann T, van der Meer D, Frei O, Agartz I, Ames D, Andersson M, Armstrong NJ, Artiges E, Atkins JR, Bauer J, Benedetti F, Boomsma DI, Brodaty H, Brosch K, Buckner RL, Cairns MJ, Calhoun V, Caspers S, Cichon S, Corvin AP, Crespo-Facorro B, Dannlowski U, David FS, de Geus EJC, de Zubicaray GI, Desrivières S, Doherty JL, Donohoe G, Ehrlich S, Eising E, Espeseth T, Fisher SE, Forstner AJ, Fortaner-Uyà L, Frouin V, Fukunaga M, Ge T, Glahn DC, Goltermann J, Grabe HJ, Green MJ, Groenewold NA, Grotegerd D, Grøntvedt GR, Hahn T, Hashimoto R, Hehir-Kwa JY, Henskens FA, Holmes AJ, Håberg AK, Haavik J, Jacquemont S, Jansen A, Jockwitz C, Jönsson EG, Kikuchi M, Kircher T, Kumar K, Le Hellard S, Leu C, Linden DE, Liu J, Loughnan R, Mather KA, McMahon KL, McRae AF, Medland SE, Meinert S, Moreau CA, Morris DW, Mowry BJ, Mühleisen TW, Nenadić I, Nöthen MM, Nyberg L, Ophoff RA, Owen MJ, Pantelis C, Paolini M, Paus T, Pausova Z, Persson K, Quidé Y, Marques TR, Sachdev PS, Sando SB, Schall U, Scott RJ, Selbæk G, Shumskaya E, Silva AI, Sisodiya SM, Stein F, Stein DJ, Straube B, Streit F, Strike LT, Teumer A, Teutenberg L, Thalamuthu A, Tooney PA, Tordesillas-Gutierrez D, Trollor JN, van 't Ent D, van den Bree MBM, van Haren NEM, Vázquez-Bourgon J, Völzke H, Wen W, Wittfeld K, Ching CRK, Westlye LT, Thompson PM, Bearden CE, Selmer KK, Alnæs D, Andreassen OA, Sønderby IE, ENIGMA-CNV Working Group |
Biological psychiatry |
37661008 |
Biol Psychiatry |
2024 Jan 15 |
https://www.ncbi.nlm.nih.gov/pubmed/37661008 |
| Neuroimaging-based classification of PTSD using data-driven computational approaches: A multisite big data study from the ENIGMA-PGC PTSD consortium. |
Zhu X, Kim Y, Ravid O, He X, Suarez-Jimenez B, Zilcha-Mano S, Lazarov A, Lee S, Abdallah CG, Angstadt M, Averill CL, Baird CL, Baugh LA, Blackford JU, Bomyea J, Bruce SE, Bryant RA, Cao Z, Choi K, Cisler J, Cotton AS, Daniels JK, Davenport ND, Davidson RJ, DeBellis MD, Dennis EL, Densmore M, deRoon-Cassini T, Disner SG, Hage WE, Etkin A, Fani N, Fercho KA, Fitzgerald J, Forster GL, Frijling JL, Geuze E, Gonenc A, Gordon EM, Gruber S, Grupe DW, Guenette JP, Haswell CC, Herringa RJ, Herzog J, Hofmann DB, Hosseini B, Hudson AR, Huggins AA, Ipser JC, Jahanshad N, Jia-Richards M, Jovanovic T, Kaufman ML, Kennis M, King A, Kinzel P, Koch SBJ, Koerte IK, Koopowitz SM, Korgaonkar MS, Krystal JH, Lanius R, Larson CL, Lebois LAM, Li G, Liberzon I, Lu GM, Luo Y, Magnotta VA, Manthey A, Maron-Katz A, May G, McLaughlin K, Mueller SC, Nawijn L, Nelson SM, Neufeld RWJ, Nitschke JB, O'Leary EM, Olatunji BO, Olff M, Peverill M, Phan KL, Qi R, Quidé Y, Rektor I, Ressler K, Riha P, Ross M, Rosso IM, Salminen LE, Sambrook K, Schmahl C, Shenton ME, Sheridan M, Shih C, Sicorello M, Sierk A, Simmons AN, Simons RM, Simons JS, Sponheim SR, Stein MB, Stein DJ, Stevens JS, Straube T, Sun D, Théberge J, Thompson PM, Thomopoulos SI, van der Wee NJA, van der Werff SJA, van Erp TGM, van Rooij SJH, van Zuiden M, Varkevisser T, Veltman DJ, Vermeiren RRJM, Walter H, Wang L, Wang X, Weis C, Winternitz S, Xie H, Zhu Y, Wall M, Neria Y, Morey RA |
NeuroImage |
37858907 |
Neuroimage |
2023 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/37858907 |
| Population clustering of structural brain aging and its association with brain development. |
Duan H, Shi R, Kang J, Banaschewski T, Bokde ALW, Büchel C, Desrivières S, Flor H, Grigis A, Garavan H, Gowland PA, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Papadopoulos Orfanos D, Poustka L, Hohmann S, Holz N, Fröhner JH, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Lin X, Feng J, IMAGEN consortium |
medRxiv : the preprint server for health sciences |
38260410 |
medRxiv |
2024 Jun 26 |
https://www.ncbi.nlm.nih.gov/pubmed/38260410 |
| The bidirectional effects between cognitive ability and brain morphology: A life course Mendelian randomization analysis. |
Korologou-Linden R, Schuurmans IK, Cecil CAM, White T, Banaschewski T, Bokde ALW, Desrivières S, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Orfanos DP, Paus T, Poustka L, Holz N, Fröhner JH, Smolka M, Walter H, Winterer J, Whelan R, Schumann G, Howe LD, Ben-Shlomo Y, Davies NM, Anderson EL |
medRxiv : the preprint server for health sciences |
38014064 |
medRxiv |
2023 Nov 17 |
https://www.ncbi.nlm.nih.gov/pubmed/38014064 |
| Unique Functional Neuroimaging Signatures of Genetic Versus Clinical High Risk for Psychosis. |
Schleifer CH, Chang SE, Amir CM, O'Hora KP, Fung H, Kang JWD, Kushan-Wells L, Daly E, Di Fabio F, Frascarelli M, Gudbrandsen M, Kates WR, Murphy D, Addington J, Anticevic A, Cadenhead KS, Cannon TD, Cornblatt BA, Keshavan M, Mathalon DH, Perkins DO, Stone WS, Walker E, Woods SW, Uddin LQ, Kumar K, Hoftman GD, Bearden CE |
Biological psychiatry |
39181389 |
Biol Psychiatry |
2025 Jan 15 |
https://www.ncbi.nlm.nih.gov/pubmed/39181389 |
| The Pattern and Staging of Brain Atrophy in Spinocerebellar Ataxia Type 2 (SCA2): MRI Volumetrics from ENIGMA-Ataxia. |
Robertson JW, Adanyeguh I, Bender B, Boesch S, Brunetti A, Cocozza S, Coutinho L, Deistung A, Diciotti S, Dogan I, Durr A, Fernandez-Ruiz J, Göricke SL, Grisoli M, Han S, Mariotti C, Marzi C, Mascalchi M, Mochel F, Nachbauer W, Nanetti L, Nigri A, Ono SE, Onyike CU, Prince JL, Reetz K, Romanzetti S, Saccà F, Synofzik M, Ghizoni Teive HA, Thomopoulos SI, Thompson PM, Timmann D, Ying SH, Harding IH, Hernandez-Castillo CR |
bioRxiv : the preprint server for biology |
39345594 |
bioRxiv |
2024 Sep 17 |
https://www.ncbi.nlm.nih.gov/pubmed/39345594 |
| Adolescent maturation of cortical excitation-inhibition balance based on individualized biophysical network modeling. |
Saberi A, Wischnewski KJ, Jung K, Lotter LD, Schaare HL, Banaschewski T, Barker GJ, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Lemaitre H, Poustka L, Hohmann S, Holz N, Baeuchl C, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, IMAGEN Consortium, Paus T, Dukart J, Bernhardt BC, Popovych OV, Eickhoff SB, Valk SL |
bioRxiv : the preprint server for biology |
38948771 |
bioRxiv |
2024 Jun 18 |
https://www.ncbi.nlm.nih.gov/pubmed/38948771 |
| Accelerated Aging after Traumatic Brain Injury: An ENIGMA Multi-Cohort Mega-Analysis. |
Dennis EL, Vervoordt S, Adamson MM, Houshang A, Bigler ED, Caeyenberghs K, Cole JH, Dams-O'Connor K, Deutscher EM, Dobryakova E, Genova HM, Grafman JH, Håberg AK, Hellstrøm T, Irimia A, Koliatsos VE, Lindsey HM, Livny A, Menon DK, Merkley TL, Mohamed AZ, Mondello S, Monti MM, Newcombe VF, Newsome MR, Ponsford J, Rabinowitz A, Smevik H, Spitz G, Venkatesan UM, Westlye LT, Zafonte R, Thompson PM, Wilde EA, Olsen A, Hillary FG |
Annals of neurology |
38845484 |
Ann Neurol |
2024 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/38845484 |
| Interplay of early negative life events, development of orbitofrontal cortical thickness and depression in young adulthood. |
Backhausen LL, Granzow J, Fröhner JH, Artiges E, Paillère-Martinot ML, Lemaître H, Sticca F, Banaschewski T, Desrivières S, Grigis A, Heinz A, Brühl R, Papadopoulos-Orfanos D, Poustka L, Hohmann S, Robinson L, Walter H, Winterer J, Schumann G, Martinot JL, Smolka MN, Vetter NC, IMAGEN Consortium |
JCPP advances |
38486954 |
JCPP Adv |
2024 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/38486954 |
| Low Smoking Exposure, the Adolescent Brain, and the Modulating Role of CHRNA5 Polymorphisms. |
Chaarani B, Kan KJ, Mackey S, Spechler PA, Potter A, Orr C, D'Alberto N, Hudson KE, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Cattrell A, Conrod PJ, Desrivières S, Flor H, Frouin V, Gallinat J, Gowland P, Heinz A, Ittermann B, Martinot JL, Nees F, Papadopoulos-Orfanos D, Paus T, Poustka L, Smolka MN, Walter H, Whelan R, Higgins ST, Schumann G, Althoff RR, Stein EA, Garavan H, IMAGEN Consortium |
Biological psychiatry. Cognitive neuroscience and neuroimaging |
31072760 |
Biol Psychiatry Cogn Neurosci Neuroimaging |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31072760 |
| Altered Cortical Brain Structure and Increased Risk for Disease Seen Decades After Perinatal Exposure to Maternal Smoking: A Study of 9000 Adults in the UK Biobank. |
Salminen LE, Wilcox RR, Zhu AH, Riedel BC, Ching CRK, Rashid F, Thomopoulos SI, Saremi A, Harrison MB, Ragothaman A, Knight V, Boyle CP, Medland SE, Thompson PM, Jahanshad N |
Cerebral cortex (New York, N.Y. : 1991) |
31271414 |
Cereb Cortex |
2019 Dec 17 |
https://www.ncbi.nlm.nih.gov/pubmed/31271414 |
| Trauma and posttraumatic stress disorder modulate polygenic predictors of hippocampal and amygdala volume. |
Zheng Y, Garrett ME, Sun D, Clarke-Rubright EK, Haswell CC, Maihofer AX, Elman JA, Franz CE, Lyons MJ, Kremen WS, Peverill M, Sambrook K, McLaughlin KA, Davenport ND, Disner S, Sponheim SR, Andrew E, Korgaonkar M, Bryant R, Varkevisser T, Geuze E, Coleman J, Beckham JC, Kimbrel NA, Sullivan D, Miller M, Hayes J, Verfaellie M, Wolf E, Salat D, Spielberg JM, Milberg W, McGlinchey R, Dennis EL, Thompson PM, Medland S, Jahanshad N, Nievergelt CM, Ashley-Koch AE, Logue MW, Morey RA |
Translational psychiatry |
34916497 |
Transl Psychiatry |
2021 Dec 16 |
https://www.ncbi.nlm.nih.gov/pubmed/34916497 |
| Cross disorder comparisons of brain structure in schizophrenia, bipolar disorder, major depressive disorder, and 22q11.2 deletion syndrome: A review of ENIGMA findings. |
Cheon EJ, Bearden CE, Sun D, Ching CRK, Andreassen OA, Schmaal L, Veltman DJ, Thomopoulos SI, Kochunov P, Jahanshad N, Thompson PM, Turner JA, van Erp TGM |
Psychiatry and clinical neurosciences |
35119167 |
Psychiatry Clin Neurosci |
2022 May |
https://www.ncbi.nlm.nih.gov/pubmed/35119167 |
| Altered white matter microstructural organization in posttraumatic stress disorder across 3047 adults: results from the PGC-ENIGMA PTSD consortium. |
Dennis EL, Disner SG, Fani N, Salminen LE, Logue M, Clarke EK, Haswell CC, Averill CL, Baugh LA, Bomyea J, Bruce SE, Cha J, Choi K, Davenport ND, Densmore M, du Plessis S, Forster GL, Frijling JL, Gonenc A, Gruber S, Grupe DW, Guenette JP, Hayes J, Hofmann D, Ipser J, Jovanovic T, Kelly S, Kennis M, Kinzel P, Koch SBJ, Koerte I, Koopowitz S, Korgaonkar M, Krystal J, Lebois LAM, Li G, Magnotta VA, Manthey A, May GJ, Menefee DS, Nawijn L, Nelson SM, Neufeld RWJ, Nitschke JB, O'Doherty D, Peverill M, Ressler KJ, Roos A, Sheridan MA, Sierk A, Simmons A, Simons RM, Simons JS, Stevens J, Suarez-Jimenez B, Sullivan DR, Théberge J, Tran JK, van den Heuvel L, van der Werff SJA, van Rooij SJH, van Zuiden M, Velez C, Verfaellie M, Vermeiren RRJM, Wade BSC, Wager T, Walter H, Winternitz S, Wolff J, York G, Zhu Y, Zhu X, Abdallah CG, Bryant R, Daniels JK, Davidson RJ, Fercho KA, Franz C, Geuze E, Gordon EM, Kaufman ML, Kremen WS, Lagopoulos J, Lanius RA, Lyons MJ, McCauley SR, McGlinchey R, McLaughlin KA, Milberg W, Neria Y, Olff M, Seedat S, Shenton M, Sponheim SR, Stein DJ, Stein MB, Straube T, Tate DF, van der Wee NJA, Veltman DJ, Wang L, Wilde EA, Thompson PM, Kochunov P, Jahanshad N, Morey RA |
Molecular psychiatry |
31857689 |
Mol Psychiatry |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31857689 |
| A Geometric Framework for Feature Mappings in Multimodal Fusion of Brain Image Data. |
Zhang W, Mi L, Thompson PM, Wang Y |
Information processing in medical imaging : proceedings of the ... conference |
31871388 |
Inf Process Med Imaging |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31871388 |
| Altered structural brain asymmetry in autism spectrum disorder in a study of 54 datasets. |
Postema MC, van Rooij D, Anagnostou E, Arango C, Auzias G, Behrmann M, Filho GB, Calderoni S, Calvo R, Daly E, Deruelle C, Di Martino A, Dinstein I, Duran FLS, Durston S, Ecker C, Ehrlich S, Fair D, Fedor J, Feng X, Fitzgerald J, Floris DL, Freitag CM, Gallagher L, Glahn DC, Gori I, Haar S, Hoekstra L, Jahanshad N, Jalbrzikowski M, Janssen J, King JA, Kong XZ, Lazaro L, Lerch JP, Luna B, Martinho MM, McGrath J, Medland SE, Muratori F, Murphy CM, Murphy DGM, O'Hearn K, Oranje B, Parellada M, Puig O, Retico A, Rosa P, Rubia K, Shook D, Taylor MJ, Tosetti M, Wallace GL, Zhou F, Thompson PM, Fisher SE, Buitelaar JK, Francks C |
Nature communications |
31673008 |
Nat Commun |
2019 Oct 31 |
https://www.ncbi.nlm.nih.gov/pubmed/31673008 |
| Virtual Ontogeny of Cortical Growth Preceding Mental Illness. |
Patel Y, Shin J, Abé C, Agartz I, Alloza C, Alnæs D, Ambrogi S, Antonucci LA, Arango C, Arolt V, Auzias G, Ayesa-Arriola R, Banaj N, Banaschewski T, Bandeira C, Başgöze Z, Cupertino RB, Bau CHD, Bauer J, Baumeister S, Bernardoni F, Bertolino A, Bonnin CDM, Brandeis D, Brem S, Bruggemann J, Bülow R, Bustillo JR, Calderoni S, Calvo R, Canales-Rodríguez EJ, Cannon DM, Carmona S, Carr VJ, Catts SV, Chenji S, Chew QH, Coghill D, Connolly CG, Conzelmann A, Craven AR, Crespo-Facorro B, Cullen K, Dahl A, Dannlowski U, Davey CG, Deruelle C, Díaz-Caneja CM, Dohm K, Ehrlich S, Epstein J, Erwin-Grabner T, Eyler LT, Fedor J, Fitzgerald J, Foran W, Ford JM, Fortea L, Fuentes-Claramonte P, Fullerton J, Furlong L, Gallagher L, Gao B, Gao S, Goikolea JM, Gotlib I, Goya-Maldonado R, Grabe HJ, Green M, Grevet EH, Groenewold NA, Grotegerd D, Gruber O, Haavik J, Hahn T, Harrison BJ, Heindel W, Henskens F, Heslenfeld DJ, Hilland E, Hoekstra PJ, Hohmann S, Holz N, Howells FM, Ipser JC, Jahanshad N, Jakobi B, Jansen A, Janssen J, Jonassen R, Kaiser A, Kaleda V, Karantonis J, King JA, Kircher T, Kochunov P, Koopowitz SM, Landén M, Landrø NI, Lawrie S, Lebedeva I, Luna B, Lundervold AJ, MacMaster FP, Maglanoc LA, Mathalon DH, McDonald C, McIntosh A, Meinert S, Michie PT, Mitchell P, Moreno-Alcázar A, Mowry B, Muratori F, Nabulsi L, Nenadić I, O'Gorman Tuura R, Oosterlaan J, Overs B, Pantelis C, Parellada M, Pariente JC, Pauli P, Pergola G, Piarulli FM, Picon F, Piras F, Pomarol-Clotet E, Pretus C, Quidé Y, Radua J, Ramos-Quiroga JA, Rasser PE, Reif A, Retico A, Roberts G, Rossell S, Rovaris DL, Rubia K, Sacchet M, Salavert J, Salvador R, Sarró S, Sawa A, Schall U, Scott R, Selvaggi P, Silk T, Sim K, Skoch A, Spalletta G, Spaniel F, Stein DJ, Steinsträter O, Stolicyn A, Takayanagi Y, Tamm L, Tavares M, Teumer A, Thiel K, Thomopoulos SI, Tomecek D, Tomyshev AS, Tordesillas-Gutiérrez D, Tosetti M, Uhlmann A, Van Rheenen T, Vazquez-Bourgón J, Vernooij MW, Vieta E, Vilarroya O, Weickert C, Weickert T, Westlye LT, Whalley H, Willinger D, Winter A, Wittfeld K, Yang TT, Yoncheva Y, Zijlmans JL, Hoogman M, Franke B, van Rooij D, Buitelaar J, Ching CRK, Andreassen OA, Pozzi E, Veltman D, Schmaal L, van Erp TGM, Turner J, Castellanos FX, Pausova Z, Thompson P, Paus T |
Biological psychiatry |
35489875 |
Biol Psychiatry |
2022 Aug 15 |
https://www.ncbi.nlm.nih.gov/pubmed/35489875 |
| Comparing empirical kinship derived heritability for imaging genetics traits in the UK biobank and human connectome project. |
Gao S, Donohue B, Hatch KS, Chen S, Ma T, Ma Y, Kvarta MD, Bruce H, Adhikari BM, Jahanshad N, Thompson PM, Blangero J, Hong LE, Medland SE, Ganjgahi H, Nichols TE, Kochunov P |
NeuroImage |
34740793 |
Neuroimage |
2021 Dec 15 |
https://www.ncbi.nlm.nih.gov/pubmed/34740793 |
| Cortical thickness across the lifespan: Data from 17,075 healthy individuals aged 3-90 years. |
Frangou S, Modabbernia A, Williams SCR, Papachristou E, Doucet GE, Agartz I, Aghajani M, Akudjedu TN, Albajes-Eizagirre A, Alnaes D, Alpert KI, Andersson M, Andreasen NC, Andreassen OA, Asherson P, Banaschewski T, Bargallo N, Baumeister S, Baur-Streubel R, Bertolino A, Bonvino A, Boomsma DI, Borgwardt S, Bourque J, Brandeis D, Breier A, Brodaty H, Brouwer RM, Buitelaar JK, Busatto GF, Buckner RL, Calhoun V, Canales-Rodríguez EJ, Cannon DM, Caseras X, Castellanos FX, Cervenka S, Chaim-Avancini TM, Ching CRK, Chubar V, Clark VP, Conrod P, Conzelmann A, Crespo-Facorro B, Crivello F, Crone EA, Dale AM, Dannlowski U, Davey C, de Geus EJC, de Haan L, de Zubicaray GI, den Braber A, Dickie EW, Di Giorgio A, Doan NT, Dørum ES, Ehrlich S, Erk S, Espeseth T, Fatouros-Bergman H, Fisher SE, Fouche JP, Franke B, Frodl T, Fuentes-Claramonte P, Glahn DC, Gotlib IH, Grabe HJ, Grimm O, Groenewold NA, Grotegerd D, Gruber O, Gruner P, Gur RE, Gur RC, Hahn T, Harrison BJ, Hartman CA, Hatton SN, Heinz A, Heslenfeld DJ, Hibar DP, Hickie IB, Ho BC, Hoekstra PJ, Hohmann S, Holmes AJ, Hoogman M, Hosten N, Howells FM, Hulshoff Pol HE, Huyser C, Jahanshad N, James A, Jernigan TL, Jiang J, Jönsson EG, Joska JA, Kahn R, Kalnin A, Kanai R, Klein M, Klyushnik TP, Koenders L, Koops S, Krämer B, Kuntsi J, Lagopoulos J, Lázaro L, Lebedeva I, Lee WH, Lesch KP, Lochner C, Machielsen MWJ, Maingault S, Martin NG, Martínez-Zalacaín I, Mataix-Cols D, Mazoyer B, McDonald C, McDonald BC, McIntosh AM, McMahon KL, McPhilemy G, Meinert S, Menchón JM, Medland SE, Meyer-Lindenberg A, Naaijen J, Najt P, Nakao T, Nordvik JE, Nyberg L, Oosterlaan J, de la Foz VO, Paloyelis Y, Pauli P, Pergola G, Pomarol-Clotet E, Portella MJ, Potkin SG, Radua J, Reif A, Rinker DA, Roffman JL, Rosa PGP, Sacchet MD, Sachdev PS, Salvador R, Sánchez-Juan P, Sarró S, Satterthwaite TD, Saykin AJ, Serpa MH, Schmaal L, Schnell K, Schumann G, Sim K, Smoller JW, Sommer I, Soriano-Mas C, Stein DJ, Strike LT, Swagerman SC, Tamnes CK, Temmingh HS, Thomopoulos SI, Tomyshev AS, Tordesillas-Gutiérrez D, Trollor JN, Turner JA, Uhlmann A, van den Heuvel OA, van den Meer D, van der Wee NJA, van Haren NEM, van 't Ent D, van Erp TGM, Veer IM, Veltman DJ, Voineskos A, Völzke H, Walter H, Walton E, Wang L, Wang Y, Wassink TH, Weber B, Wen W, West JD, Westlye LT, Whalley H, Wierenga LM, Wittfeld K, Wolf DH, Worker A, Wright MJ, Yang K, Yoncheva Y, Zanetti MV, Ziegler GC, Karolinska Schizophrenia Project (KaSP), Thompson PM, Dima D |
Human brain mapping |
33595143 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33595143 |
| A shared neural basis underlying psychiatric comorbidity. |
Xie C, Xiang S, Shen C, Peng X, Kang J, Li Y, Cheng W, He S, Bobou M, Broulidakis MJ, van Noort BM, Zhang Z, Robinson L, Vaidya N, Winterer J, Zhang Y, King S, Banaschewski T, Barker GJ, Bokde ALW, Bromberg U, Büchel C, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Ittermann B, Lemaître H, Martinot JL, Martinot MP, Nees F, Orfanos DP, Paus T, Poustka L, Fröhner JH, Schmidt U, Sinclair J, Smolka MN, Stringaris A, Walter H, Whelan R, Desrivières S, Sahakian BJ, Robbins TW, Schumann G, Jia T, Feng J, IMAGEN Consortium, STRATIFY/ESTRA Consortium, ZIB Consortium |
Nature medicine |
37095248 |
Nat Med |
2023 May |
https://www.ncbi.nlm.nih.gov/pubmed/37095248 |
| Unravelling Robust Brain-Behavior Links of Depressive Symptoms Through Granular Network Models: Understanding Heterogeneity and Clinical Implications. |
Freichel R, Lenartowicz A, Douw L, Kruschwitz JD, Banaschewski T, Barker GJ, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Heinz A, Brühl R, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Orfanos DP, Paus T, Poustka L, Holz N, Baeuchl C, Smolka MN, Vaidya N, Whelan R, Frouin V, Schumann G, IMAGEN Consortium, Walter H, Blanken TF |
medRxiv : the preprint server for health sciences |
38045393 |
medRxiv |
2023 Nov 21 |
https://www.ncbi.nlm.nih.gov/pubmed/38045393 |
| Cerebellar Volume and Disease Staging in Parkinson's Disease: An ENIGMA-PD Study. |
Kerestes R, Laansma MA, Owens-Walton C, Perry A, van Heese EM, Al-Bachari S, Anderson TJ, Assogna F, Aventurato ÍK, van Balkom TD, Berendse HW, van den Berg KRE, Betts R, Brioschi R, Carr J, Cendes F, Clark LR, Dalrymple-Alford JC, Dirkx MF, Druzgal J, Durrant H, Emsley HCA, Garraux G, Haroon HA, Helmich RC, van den Heuvel OA, João RB, Johansson ME, Khachatryan SG, Lochner C, McMillan CT, Melzer TR, Mosley PE, Newman B, Opriessnig P, Parkes LM, Pellicano C, Piras F, Pitcher TL, Poston KL, Rango M, Roos A, Rummel C, Schmidt R, Schwingenschuh P, Silva LS, Smith V, Squarcina L, Stein DJ, Tavadyan Z, Tsai CC, Vecchio D, Vriend C, Wang JJ, Wiest R, Yasuda CL, Young CB, Jahanshad N, Thompson PM, van der Werf YD, Harding IH, ENIGMA-Parkinson's Study |
Movement disorders : official journal of the Movement Disorder Society |
37964373 |
Mov Disord |
2023 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/37964373 |
| Normative modelling of brain morphometry across the lifespan with CentileBrain: algorithm benchmarking and model optimisation. |
Ge R, Yu Y, Qi YX, Fan YN, Chen S, Gao C, Haas SS, New F, Boomsma DI, Brodaty H, Brouwer RM, Buckner R, Caseras X, Crivello F, Crone EA, Erk S, Fisher SE, Franke B, Glahn DC, Dannlowski U, Grotegerd D, Gruber O, Hulshoff Pol HE, Schumann G, Tamnes CK, Walter H, Wierenga LM, Jahanshad N, Thompson PM, Frangou S, ENIGMA Lifespan Working Group |
The Lancet. Digital health |
38395541 |
Lancet Digit Health |
2024 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/38395541 |
| A robust brain network for sustained attention from adolescence to adulthood that predicts later substance use. |
Weng Y, Kruschwitz J, Rueda-Delgado LM, Ruddy K, Boyle R, Franzen L, Serin E, Nweze T, Hanson J, Smyth A, Farnan T, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, McGrath J, Nees F, Orfanos DP, Paus T, Poustka L, Holz N, Fröhner JH, Smolka MN, Vaidya N, Schumann G, Walter H, Whelan R, IMAGEN Consortium |
bioRxiv : the preprint server for biology |
38617224 |
bioRxiv |
2024 Jun 17 |
https://www.ncbi.nlm.nih.gov/pubmed/38617224 |
| Drinking motives, personality traits and life stressors-identifying pathways to harmful alcohol use in adolescence using a panel network approach. |
Freichel R, Pfirrmann J, Cousijn J, de Jong P, Franken I, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Heinz A, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Vaidya N, Whelan R, Schumann G, Walter H, Veer IM, Wiers RW, IMAGEN Consortium |
Addiction (Abingdon, England) |
37157052 |
Addiction |
2023 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/37157052 |
| The Role of Empathy in Alcohol Use of Bullying Perpetrators and Victims: Lower Personal Empathic Distress Makes Male Perpetrators of Bullying More Vulnerable to Alcohol Use. |
Prignitz M, Banaschewski T, Bokde ALW, Desrivières S, Grigis A, Garavan H, Gowland P, Heinz A, Martinot JL, Paillère Martinot ML, Artiges E, Papadopoulos Orfanos D, Poustka L, Hohmann S, Fröhner JH, Robinson L, Smolka MN, Walter H, Winterer JM, Whelan R, Schumann G, Nees F, Flor H, On Behalf Of The Imagen Consortium |
International journal of environmental research and public health |
37444132 |
Int J Environ Res Public Health |
2023 Jul 3 |
https://www.ncbi.nlm.nih.gov/pubmed/37444132 |
| Subcortical Brain Alterations in Carriers of Genomic Copy Number Variants. |
Kumar K, Modenato C, Moreau C, Ching CRK, Harvey A, Martin-Brevet S, Huguet G, Jean-Louis M, Douard E, Martin CO, Younis N, Tamer P, Maillard AM, Rodriguez-Herreros B, Pain A, 16p11.2 European Consortium, Simons Searchlight Consortium, Kushan L, Isaev D, Alpert K, Ragothaman A, Turner JA, Wang L, Ho TC, Schmaal L, Silva AI, van den Bree MBM, Linden DEJ, Owen MJ, Hall J, Lippé S, Dumas G, Draganski B, Gutman BA, Sønderby IE, Andreassen OA, Schultz LM, Almasy L, Glahn DC, Bearden CE, Thompson PM, Jacquemont S |
The American journal of psychiatry |
37434504 |
Am J Psychiatry |
2023 Sep 1 |
https://www.ncbi.nlm.nih.gov/pubmed/37434504 |
| Independent contribution of polygenic risk for schizophrenia and cannabis use in predicting psychotic-like experiences in young adulthood: testing gene × environment moderation and mediation. |
Elkrief L, Lin B, Marchi M, Afzali MH, Banaschewski T, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Luykx J, Boks MP, Conrod PJ, IMAGEN consortium |
Psychological medicine |
37310336 |
Psychol Med |
2023 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/37310336 |
| Regional patterns of human cortex development correlate with underlying neurobiology. |
Lotter LD, Saberi A, Hansen JY, Misic B, Paquola C, Barker GJ, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Paillère ML, Artiges E, Orfanos DP, Paus T, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, IMAGEN Consortium, Nees F, Banaschewski T, Eickhoff SB, Dukart J |
bioRxiv : the preprint server for biology |
37205539 |
bioRxiv |
2024 Aug 10 |
https://www.ncbi.nlm.nih.gov/pubmed/37205539 |
| Inferring cell-type-specific causal gene regulatory networks during human neurogenesis. |
Aygün N, Liang D, Crouse WL, Keele GR, Love MI, Stein JL |
Genome biology |
37254169 |
Genome Biol |
2023 May 30 |
https://www.ncbi.nlm.nih.gov/pubmed/37254169 |
| Right Prefrontal Cortical Thickness Is Associated With Response to Cognitive-Behavioral Therapy in Children With Obsessive-Compulsive Disorder. |
Bertolín S, Alonso P, Martínez-Zalacaín I, Menchón JM, Jimenez-Murcia S, Baker JT, Bargalló N, Batistuzzo MC, Boedhoe PSW, Brennan BP, Feusner JD, Fitzgerald KD, Fontaine M, Hansen B, Hirano Y, Hoexter MQ, Huyser C, Jahanshad N, Jaspers-Fayer F, Kuno M, Kvale G, Lazaro L, Machado-Sousa M, Marsh R, Morgado P, Nakagawa A, Norman L, Nurmi EL, O'Neill J, Ortiz AE, Perriello C, Piacentini J, Picó-Pérez M, Shavitt RG, Shimizu E, Simpson HB, Stewart SE, Thomopoulos SI, Thorsen AL, Walitza S, Wolters LH, ENIGMA-OCD Working Group, Thompson PM, van den Heuvel OA, Stein DJ, Soriano-Mas C |
Journal of the American Academy of Child and Adolescent Psychiatry |
36526161 |
J Am Acad Child Adolesc Psychiatry |
2023 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/36526161 |
| Bridging Big Data: Procedures for Combining Non-equivalent Cognitive Measures from the ENIGMA Consortium. |
Kennedy E, Vadlamani S, Lindsey HM, Lei PW, Jo-Pugh M, Adamson M, Alda M, Alonso-Lana S, Ambrogi S, Anderson TJ, Arango C, Asarnow RF, Avram M, Ayesa-Arriola R, Babikian T, Banaj N, Bird LJ, Borgwardt S, Brodtmann A, Brosch K, Caeyenberghs K, Calhoun VD, Chiaravalloti ND, Cifu DX, Crespo-Facorro B, Dalrymple-Alford JC, Dams-O'Connor K, Dannlowski U, Darby D, Davenport N, DeLuca J, Diaz-Caneja CM, Disner SG, Dobryakova E, Ehrlich S, Esopenko C, Ferrarelli F, Frank LE, Franz C, Fuentes-Claramonte P, Genova H, Giza CC, Goltermann J, Grotegerd D, Gruber M, Gutierrez-Zotes A, Ha M, Haavik J, Hinkin C, Hoskinson KR, Hubl D, Irimia A, Jansen A, Kaess M, Kang X, Kenney K, Keřková B, Khlif MS, Kim M, Kindler J, Kircher T, Knížková K, Kolskår KK, Krch D, Kremen WS, Kuhn T, Kumari V, Kwon JS, Langella R, Laskowitz S, Lee J, Lengenfelder J, Liebel SW, Liou-Johnson V, Lippa SM, Løvstad M, Lundervold A, Marotta C, Marquardt CA, Mattos P, Mayeli A, McDonald CR, Meinert S, Melzer TR, Merchán-Naranjo J, Michel C, Morey RA, Mwangi B, Myall DJ, Nenadić I, Newsome MR, Nunes A, O'Brien T, Oertel V, Ollinger J, Olsen A, de la Foz VOG, Ozmen M, Pardoe H, Parent M, Piras F, Piras F, Pomarol-Clotet E, Repple J, Richard G, Rodriguez J, Rodriguez M, Rootes-Murdy K, Rowland J, Ryan NP, Salvador R, Sanders AM, Schmidt A, Soares JC, Spalleta G, Španiel F, Stasenko A, Stein F, Straube B, Thames A, Thomas-Odenthal F, Thomopoulos SI, Tone E, Torres I, Troyanskaya M, Turner JA, Ulrichsen KM, Umpierrez G, Vilella E, Vivash L, Walker WC, Werden E, Westlye LT, Wild K, Wroblewski A, Wu MJ, Wylie GR, Yatham LN, Zunta-Soares GB, Thompson PM, Tate DF, Hillary FG, Dennis EL, Wilde EA |
bioRxiv : the preprint server for biology |
36712107 |
bioRxiv |
2023 Apr 7 |
https://www.ncbi.nlm.nih.gov/pubmed/36712107 |
| Brain ageing in schizophrenia: evidence from 26 international cohorts via the ENIGMA Schizophrenia consortium. |
Constantinides C, Han LKM, Alloza C, Antonucci LA, Arango C, Ayesa-Arriola R, Banaj N, Bertolino A, Borgwardt S, Bruggemann J, Bustillo J, Bykhovski O, Calhoun V, Carr V, Catts S, Chung YC, Crespo-Facorro B, Díaz-Caneja CM, Donohoe G, Plessis SD, Edmond J, Ehrlich S, Emsley R, Eyler LT, Fuentes-Claramonte P, Georgiadis F, Green M, Guerrero-Pedraza A, Ha M, Hahn T, Henskens FA, Holleran L, Homan S, Homan P, Jahanshad N, Janssen J, Ji E, Kaiser S, Kaleda V, Kim M, Kim WS, Kirschner M, Kochunov P, Kwak YB, Kwon JS, Lebedeva I, Liu J, Mitchie P, Michielse S, Mothersill D, Mowry B, de la Foz VO, Pantelis C, Pergola G, Piras F, Pomarol-Clotet E, Preda A, Quidé Y, Rasser PE, Rootes-Murdy K, Salvador R, Sangiuliano M, Sarró S, Schall U, Schmidt A, Scott RJ, Selvaggi P, Sim K, Skoch A, Spalletta G, Spaniel F, Thomopoulos SI, Tomecek D, Tomyshev AS, Tordesillas-Gutiérrez D, van Amelsvoort T, Vázquez-Bourgon J, Vecchio D, Voineskos A, Weickert CS, Weickert T, Thompson PM, Schmaal L, van Erp TGM, Turner J, Cole JH, ENIGMA Schizophrenia Consortium, Dima D, Walton E |
Molecular psychiatry |
36494461 |
Mol Psychiatry |
2023 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/36494461 |
| Cannabis-Associated Psychotic-like Experiences Are Mediated by Developmental Changes in the Parahippocampal Gyrus. |
Yu T, Jia T, Zhu L, Desrivières S, Macare C, Bi Y, Bokde ALW, Quinlan EB, Heinz A, Ittermann B, Liu C, Ji L, Banaschewski T, Ren D, Du L, Hou B, Flor H, Frouin V, Garavan H, Gowland P, Martinot JL, Paillère Martinot ML, Nees F, Orfanos DP, Luo Q, Chu C, Paus T, Poustka L, Hohmann S, Millenet S, Smolka MN, Vetter NC, Mennigen E, Lei C, Walter H, Fröhner JH, Whelan R, He G, He L, Schumann G, Robert G, IMAGEN Consortium |
Journal of the American Academy of Child and Adolescent Psychiatry |
31326579 |
J Am Acad Child Adolesc Psychiatry |
2020 May |
https://www.ncbi.nlm.nih.gov/pubmed/31326579 |
| Associations Between Exposure to Gestational Diabetes Mellitus In Utero and Daily Energy Intake, Brain Responses to Food Cues, and Adiposity in Children. |
Luo S, Angelo BC, Chow T, Monterosso JR, Thompson PM, Xiang AH, Page KA |
Diabetes care |
33827804 |
Diabetes Care |
2021 May |
https://www.ncbi.nlm.nih.gov/pubmed/33827804 |
| The interaction of child abuse and rs1360780 of the FKBP5 gene is associated with amygdala resting-state functional connectivity in young adults. |
Wesarg C, Veer IM, Oei NYL, Daedelow LS, Lett TA, Banaschewski T, Barker GJ, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Grigis A, Garavan H, Brühl R, Martinot JL, Artiges E, Nees F, Orfanos DP, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Whelan R, Schumann G, Heinz A, Walter H, IMAGEN Consortium |
Human brain mapping |
33818852 |
Hum Brain Mapp |
2021 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/33818852 |
| The role of maternal BMI on brain food cue reactivity in children: a preliminary study. |
Luo S, Angelo B, Chow T, Monterosso JR, Xiang AH, Thompson PM, Page KA |
Brain imaging and behavior |
33738669 |
Brain Imaging Behav |
2021 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/33738669 |
| Multi-task Dictionary Learning based on Convolutional Neural Networks for Longitudinal Clinical Score Predictions in Alzheimer's Disease. |
Dong Q, Zhang J, Li Q, Thompson PM, Caselli RJ, Ye J, Wang Y, Alzheimers Disease Neuroimaging Initiative |
Human brain and artificial intelligence : first International Workshop, HBAI 2019, held in conjunction with IJCAI 2019, Macao, China, August 12, 2019, revised selected papers. HBAI (Conference) (1st : 2019 : Macau, China) |
33907742 |
Hum Brain Artif Intell (2019) |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/33907742 |
| Morphometric Gaussian Process for Landmarking on Grey Matter Tetrahedral Models. |
Fan Y, Leporé N, Wang Y |
Proceedings of SPIE--the International Society for Optical Engineering |
33981127 |
Proc SPIE Int Soc Opt Eng |
2020 Jan 3 |
https://www.ncbi.nlm.nih.gov/pubmed/33981127 |
| A systems-level analysis highlights microglial activation as a modifying factor in common epilepsies. |
Altmann A, Ryten M, Di Nunzio M, Ravizza T, Tolomeo D, Reynolds RH, Somani A, Bacigaluppi M, Iori V, Micotti E, Di Sapia R, Cerovic M, Palma E, Ruffolo G, Botía JA, Absil J, Alhusaini S, Alvim MKM, Auvinen P, Bargallo N, Bartolini E, Bender B, Bergo FPG, Bernardes T, Bernasconi A, Bernasconi N, Bernhardt BC, Blackmon K, Braga B, Caligiuri ME, Calvo A, Carlson C, Carr SJA, Cavalleri GL, Cendes F, Chen J, Chen S, Cherubini A, Concha L, David P, Delanty N, Depondt C, Devinsky O, Doherty CP, Domin M, Focke NK, Foley S, Franca W, Gambardella A, Guerrini R, Hamandi K, Hibar DP, Isaev D, Jackson GD, Jahanshad N, Kälviäinen R, Keller SS, Kochunov P, Kotikalapudi R, Kowalczyk MA, Kuzniecky R, Kwan P, Labate A, Langner S, Lenge M, Liu M, Martin P, Mascalchi M, Meletti S, Morita-Sherman ME, O'Brien TJ, Pariente JC, Richardson MP, Rodriguez-Cruces R, Rummel C, Saavalainen T, Semmelroch MK, Severino M, Striano P, Thesen T, Thomas RH, Tondelli M, Tortora D, Vaudano AE, Vivash L, von Podewils F, Wagner J, Weber B, Wiest R, Yasuda CL, Zhang G, Zhang J, ENIGMA-Epilepsy Working Group, Leu C, Avbersek A, EpiPGX Consortium, Thom M, Whelan CD, Thompson P, McDonald CR, Vezzani A, Sisodiya SM |
Neuropathology and applied neurobiology |
34388852 |
Neuropathol Appl Neurobiol |
2022 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/34388852 |
| Effects of eight neuropsychiatric copy number variants on human brain structure. |
Modenato C, Kumar K, Moreau C, Martin-Brevet S, Huguet G, Schramm C, Jean-Louis M, Martin CO, Younis N, Tamer P, Douard E, Thébault-Dagher F, Côté V, Charlebois AR, Deguire F, Maillard AM, Rodriguez-Herreros B, Pain A, Richetin S, 16p11.2 European Consortium, Simons Searchlight Consortium, Melie-Garcia L, Kushan L, Silva AI, van den Bree MBM, Linden DEJ, Owen MJ, Hall J, Lippé S, Chakravarty M, Bzdok D, Bearden CE, Draganski B, Jacquemont S |
Translational psychiatry |
34285187 |
Transl Psychiatry |
2021 Jul 20 |
https://www.ncbi.nlm.nih.gov/pubmed/34285187 |
| Intracranial and subcortical volumes in adolescents with early-onset psychosis: A multisite mega-analysis from the ENIGMA consortium. |
Gurholt TP, Lonning V, Nerland S, Jørgensen KN, Haukvik UK, Alloza C, Arango C, Barth C, Bearden CE, Berk M, Bohman H, Dandash O, Díaz-Caneja CM, Edbom CT, van Erp TGM, Fett AJ, Frangou S, Goldstein BI, Grigorian A, Jahanshad N, James AC, Janssen J, Johannessen C, Karlsgodt KH, Kempton MJ, Kochunov P, Krabbendam L, Kyriakopoulos M, Lundberg M, MacIntosh BJ, Rund BR, Smelror RE, Sultan A, Tamnes CK, Thomopoulos SI, Vajdi A, Wedervang-Resell K, Myhre AM, Andreassen OA, Thompson PM, Agartz I, ENIGMA-EOP Working Group |
Human brain mapping |
33017498 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33017498 |
| Structural neuroimaging biomarkers for obsessive-compulsive disorder in the ENIGMA-OCD consortium: medication matters. |
Bruin WB, Taylor L, Thomas RM, Shock JP, Zhutovsky P, Abe Y, Alonso P, Ameis SH, Anticevic A, Arnold PD, Assogna F, Benedetti F, Beucke JC, Boedhoe PSW, Bollettini I, Bose A, Brem S, Brennan BP, Buitelaar JK, Calvo R, Cheng Y, Cho KIK, Dallaspezia S, Denys D, Ely BA, Feusner JD, Fitzgerald KD, Fouche JP, Fridgeirsson EA, Gruner P, Gürsel DA, Hauser TU, Hirano Y, Hoexter MQ, Hu H, Huyser C, Ivanov I, James A, Jaspers-Fayer F, Kathmann N, Kaufmann C, Koch K, Kuno M, Kvale G, Kwon JS, Liu Y, Lochner C, Lázaro L, Marques P, Marsh R, Martínez-Zalacaín I, Mataix-Cols D, Menchón JM, Minuzzi L, Moreira PS, Morer A, Morgado P, Nakagawa A, Nakamae T, Nakao T, Narayanaswamy JC, Nurmi EL, O'Neill J, Pariente JC, Perriello C, Piacentini J, Piras F, Piras F, Reddy YCJ, Rus-Oswald OG, Sakai Y, Sato JR, Schmaal L, Shimizu E, Simpson HB, Soreni N, Soriano-Mas C, Spalletta G, Stern ER, Stevens MC, Stewart SE, Szeszko PR, Tolin DF, Venkatasubramanian G, Wang Z, Yun JY, van Rooij D, ENIGMA-OCD Working Group, Thompson PM, van den Heuvel OA, Stein DJ, van Wingen GA |
Translational psychiatry |
33033241 |
Transl Psychiatry |
2020 Oct 8 |
https://www.ncbi.nlm.nih.gov/pubmed/33033241 |
| The Evolutionary History of Common Genetic Variants Influencing Human Cortical Surface Area. |
Tilot AK, Khramtsova EA, Liang D, Grasby KL, Jahanshad N, Painter J, Colodro-Conde L, Bralten J, Hibar DP, Lind PA, Liu S, Brotman SM, Thompson PM, Medland SE, Macciardi F, Stranger BE, Davis LK, Fisher SE, Stein JL |
Cerebral cortex (New York, N.Y. : 1991) |
33290510 |
Cereb Cortex |
2021 Mar 5 |
https://www.ncbi.nlm.nih.gov/pubmed/33290510 |
| Progressive Spinal Cord Degeneration in Friedreich's Ataxia: Results from ENIGMA-Ataxia. |
Rezende TJR, Adanyeguh IM, Arrigoni F, Bender B, Cendes F, Corben LA, Deistung A, Delatycki M, Dogan I, Egan GF, Göricke SL, Georgiou-Karistianis N, Henry PG, Hutter D, Jahanshad N, Joers JM, Lenglet C, Lindig T, Martinez ARM, Martinuzzi A, Paparella G, Peruzzo D, Reetz K, Romanzetti S, Schöls L, Schulz JB, Synofzik M, Thomopoulos SI, Thompson PM, Timmann D, Harding IH, França MC Jr |
Movement disorders : official journal of the Movement Disorder Society |
36308733 |
Mov Disord |
2023 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/36308733 |
| Neuroanatomical heterogeneity and homogeneity in individuals at clinical high risk for psychosis. |
Baldwin H, Radua J, Antoniades M, Haas SS, Frangou S, Agartz I, Allen P, Andreassen OA, Atkinson K, Bachman P, Baeza I, Bartholomeusz CF, Chee MWL, Colibazzi T, Cooper RE, Corcoran CM, Cropley VL, Ebdrup BH, Fortea A, Glenthøj LB, Hamilton HK, Haut KM, Hayes RA, He Y, Heekeren K, Kaess M, Kasai K, Katagiri N, Kim M, Kindler J, Klaunig MJ, Koike S, Koppel A, Kristensen TD, Bin Kwak Y, Kwon JS, Lawrie SM, Lebedeva I, Lee J, Lin A, Loewy RL, Mathalon DH, Michel C, Mizrahi R, Møller P, Nelson B, Nemoto T, Nordholm D, Omelchenko MA, Pantelis C, Raghava JM, Røssberg JI, Rössler W, Salisbury DF, Sasabayashi D, Schall U, Smigielski L, Sugranyes G, Suzuki M, Takahashi T, Tamnes CK, Tang J, Theodoridou A, Thomopoulos SI, Tomyshev AS, Uhlhaas PJ, Værnes TG, van Amelsvoort TAMJ, Van Erp TGM, Waltz JA, Westlye LT, Wood SJ, Zhou JH, McGuire P, Thompson PM, Jalbrzikowski M, Hernaus D, Fusar-Poli P, ENIGMA Clinical High Risk for Psychosis Working Group |
Translational psychiatry |
35882855 |
Transl Psychiatry |
2022 Jul 26 |
https://www.ncbi.nlm.nih.gov/pubmed/35882855 |
| The role of educational attainment and brain morphology in major depressive disorder: Findings from the ENIGMA major depressive disorder consortium. |
Whittle S, Rakesh D, Schmaal L, Veltman DJ, Thompson PM, Singh A, Gonul AS, Aleman A, Uyar Demir A, Krug A, Mwangi B, Krämer B, Baune BT, Stein DJ, Grotegerd D, Pomarol-Clotet E, Rodríguez-Cano E, Melloni E, Benedetti F, Stein F, Grabe HJ, Völzke H, Gotlib IH, Nenadić I, Soares JC, Repple J, Sim K, Brosch K, Wittfeld K, Berger K, Hermesdorf M, Portella MJ, Sacchet MD, Wu MJ, Opel N, Groenewold NA, Gruber O, Fuentes-Claramonte P, Salvador R, Goya-Maldonado R, Sarró S, Poletti S, Meinert SL, Kircher T, Dannlowski U, Pozzi E |
Journal of psychopathology and clinical science |
35653754 |
J Psychopathol Clin Sci |
2022 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/35653754 |
| The joint effect of aging and HIV infection on microstructure of white matter bundles. |
Kuhn T, Jin Y, Huang C, Kim Y, Nir TM, Gullett JM, Jones JD, Sayegh P, Chung C, Dang BH, Singer EJ, Shattuck DW, Jahanshad N, Bookheimer SY, Hinkin CH, Zhu H, Thompson PM, Thames AD |
Human brain mapping |
31271489 |
Hum Brain Mapp |
2019 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/31271489 |
| The clinical utility of proton magnetic resonance spectroscopy in traumatic brain injury: recommendations from the ENIGMA MRS working group. |
Bartnik-Olson BL, Alger JR, Babikian T, Harris AD, Holshouser B, Kirov II, Maudsley AA, Thompson PM, Dennis EL, Tate DF, Wilde EA, Lin A |
Brain imaging and behavior |
32797399 |
Brain Imaging Behav |
2021 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/32797399 |
| Brain structure and habitat: Do the brains of our children tell us where they have been brought up? |
Kühn S, Banaschewski T, Bokde ALW, Büchel C, Quinlan EB, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MLP, Nees F, Orfanos DP, Paus T, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Meyer-Lindenberg A, Gallinat J |
NeuroImage |
32800993 |
Neuroimage |
2020 Nov 15 |
https://www.ncbi.nlm.nih.gov/pubmed/32800993 |
| The reliability and heritability of cortical folds and their genetic correlations across hemispheres. |
Pizzagalli F, Auzias G, Yang Q, Mathias SR, Faskowitz J, Boyd JD, Amini A, Rivière D, McMahon KL, de Zubicaray GI, Martin NG, Mangin JF, Glahn DC, Blangero J, Wright MJ, Thompson PM, Kochunov P, Jahanshad N |
Communications biology |
32934300 |
Commun Biol |
2020 Sep 15 |
https://www.ncbi.nlm.nih.gov/pubmed/32934300 |
| ENIGMA-anxiety working group: Rationale for and organization of large-scale neuroimaging studies of anxiety disorders. |
Bas-Hoogendam JM, Groenewold NA, Aghajani M, Freitag GF, Harrewijn A, Hilbert K, Jahanshad N, Thomopoulos SI, Thompson PM, Veltman DJ, Winkler AM, Lueken U, Pine DS, van der Wee NJA, Stein DJ, ENIGMA-Anxiety Working Group |
Human brain mapping |
32618421 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32618421 |
| The ENIGMA-Epilepsy working group: Mapping disease from large data sets. |
Sisodiya SM, Whelan CD, Hatton SN, Huynh K, Altmann A, Ryten M, Vezzani A, Caligiuri ME, Labate A, Gambardella A, Ives-Deliperi V, Meletti S, Munsell BC, Bonilha L, Tondelli M, Rebsamen M, Rummel C, Vaudano AE, Wiest R, Balachandra AR, Bargalló N, Bartolini E, Bernasconi A, Bernasconi N, Bernhardt B, Caldairou B, Carr SJA, Cavalleri GL, Cendes F, Concha L, Desmond PM, Domin M, Duncan JS, Focke NK, Guerrini R, Hamandi K, Jackson GD, Jahanshad N, Kälviäinen R, Keller SS, Kochunov P, Kowalczyk MA, Kreilkamp BAK, Kwan P, Lariviere S, Lenge M, Lopez SM, Martin P, Mascalchi M, Moreira JCV, Morita-Sherman ME, Pardoe HR, Pariente JC, Raviteja K, Rocha CS, Rodríguez-Cruces R, Seeck M, Semmelroch MKHG, Sinclair B, Soltanian-Zadeh H, Stein DJ, Striano P, Taylor PN, Thomas RH, Thomopoulos SI, Velakoulis D, Vivash L, Weber B, Yasuda CL, Zhang J, Thompson PM, McDonald CR, ENIGMA Consortium Epilepsy Working Group |
Human brain mapping |
32468614 |
Hum Brain Mapp |
2020 May 29 |
https://www.ncbi.nlm.nih.gov/pubmed/32468614 |
| Increased power by harmonizing structural MRI site differences with the ComBat batch adjustment method in ENIGMA. |
Radua J, Vieta E, Shinohara R, Kochunov P, Quidé Y, Green MJ, Weickert CS, Weickert T, Bruggemann J, Kircher T, Nenadić I, Cairns MJ, Seal M, Schall U, Henskens F, Fullerton JM, Mowry B, Pantelis C, Lenroot R, Cropley V, Loughland C, Scott R, Wolf D, Satterthwaite TD, Tan Y, Sim K, Piras F, Spalletta G, Banaj N, Pomarol-Clotet E, Solanes A, Albajes-Eizagirre A, Canales-Rodríguez EJ, Sarro S, Di Giorgio A, Bertolino A, Stäblein M, Oertel V, Knöchel C, Borgwardt S, du Plessis S, Yun JY, Kwon JS, Dannlowski U, Hahn T, Grotegerd D, Alloza C, Arango C, Janssen J, Díaz-Caneja C, Jiang W, Calhoun V, Ehrlich S, Yang K, Cascella NG, Takayanagi Y, Sawa A, Tomyshev A, Lebedeva I, Kaleda V, Kirschner M, Hoschl C, Tomecek D, Skoch A, van Amelsvoort T, Bakker G, James A, Preda A, Weideman A, Stein DJ, Howells F, Uhlmann A, Temmingh H, López-Jaramillo C, Díaz-Zuluaga A, Fortea L, Martinez-Heras E, Solana E, Llufriu S, Jahanshad N, Thompson P, Turner J, van Erp T, ENIGMA Consortium collaborators |
NeuroImage |
32470572 |
Neuroimage |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32470572 |
| ENIGMA brain injury: Framework, challenges, and opportunities. |
Dennis EL, Baron D, Bartnik-Olson B, Caeyenberghs K, Esopenko C, Hillary FG, Kenney K, Koerte IK, Lin AP, Mayer AR, Mondello S, Olsen A, Thompson PM, Tate DF, Wilde EA |
Human brain mapping |
32476212 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32476212 |
| Social support modulates the association between PTSD diagnosis and medial frontal volume in Chinese adults who lost their only child. |
Qi R, Luo Y, Zhang L, Weng Y, Surento W, Jahanshad N, Xu Q, Yin Y, Li L, Cao Z, Thompson PM, Lu GM |
Neurobiology of stress |
32490056 |
Neurobiol Stress |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/32490056 |
| A Potential Role for the STXBP5-AS1 Gene in Adult ADHD Symptoms. |
Arias-Vásquez A, Groffen AJ, Spijker S, Ouwens KG, Klein M, Vojinovic D, Galesloot TE, Bralten J, Hottenga JJ, van der Most PJ, Kattenberg VM, Pool R, Nolte IM, Penninx BWJH, Fedko IO, Dolan CV, Nivard MG, den Braber A, van Duijn CM, Hoekstra PJ, Buitelaar JK, Kiemeney LA, Hoogman M, Middeldorp CM, Draisma HHM, Vermeulen SH, Sánchez-Mora C, Ramos-Quiroga JA, Ribasés M, EAGLE-ADHD Consortium, Hartman CA, Kooij JJS, Amin N, Smit AB, Franke B, Boomsma DI |
Behavior genetics |
30659475 |
Behav Genet |
2019 May |
https://www.ncbi.nlm.nih.gov/pubmed/30659475 |
| Toward a global and reproducible science for brain imaging in neurotrauma: the ENIGMA adult moderate/severe traumatic brain injury working group. |
Olsen A, Babikian T, Bigler ED, Caeyenberghs K, Conde V, Dams-O'Connor K, Dobryakova E, Genova H, Grafman J, Håberg AK, Heggland I, Hellstrøm T, Hodges CB, Irimia A, Jha RM, Johnson PK, Koliatsos VE, Levin H, Li LM, Lindsey HM, Livny A, Løvstad M, Medaglia J, Menon DK, Mondello S, Monti MM, Newcombe VFJ, Petroni A, Ponsford J, Sharp D, Spitz G, Westlye LT, Thompson PM, Dennis EL, Tate DF, Wilde EA, Hillary FG |
Brain imaging and behavior |
32797398 |
Brain Imaging Behav |
2021 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/32797398 |
| Ethical issues in global neuroimaging genetics collaborations. |
Palk A, Illes J, Thompson PM, Stein DJ |
NeuroImage |
32736000 |
Neuroimage |
2020 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32736000 |
| Mega-analysis methods in ENIGMA: The experience of the generalized anxiety disorder working group. |
Zugman A, Harrewijn A, Cardinale EM, Zwiebel H, Freitag GF, Werwath KE, Bas-Hoogendam JM, Groenewold NA, Aghajani M, Hilbert K, Cardoner N, Porta-Casteràs D, Gosnell S, Salas R, Blair KS, Blair JR, Hammoud MZ, Milad M, Burkhouse K, Phan KL, Schroeder HK, Strawn JR, Beesdo-Baum K, Thomopoulos SI, Grabe HJ, Van der Auwera S, Wittfeld K, Nielsen JA, Buckner R, Smoller JW, Mwangi B, Soares JC, Wu MJ, Zunta-Soares GB, Jackowski AP, Pan PM, Salum GA, Assaf M, Diefenbach GJ, Brambilla P, Maggioni E, Hofmann D, Straube T, Andreescu C, Berta R, Tamburo E, Price R, Manfro GG, Critchley HD, Makovac E, Mancini M, Meeten F, Ottaviani C, Agosta F, Canu E, Cividini C, Filippi M, Kostić M, Munjiza A, Filippi CA, Leibenluft E, Alberton BAV, Balderston NL, Ernst M, Grillon C, Mujica-Parodi LR, van Nieuwenhuizen H, Fonzo GA, Paulus MP, Stein MB, Gur RE, Gur RC, Kaczkurkin AN, Larsen B, Satterthwaite TD, Harper J, Myers M, Perino MT, Yu Q, Sylvester CM, Veltman DJ, Lueken U, Van der Wee NJA, Stein DJ, Jahanshad N, Thompson PM, Pine DS, Winkler AM |
Human brain mapping |
32596977 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32596977 |
| White matter abnormalities across different epilepsy syndromes in adults: an ENIGMA-Epilepsy study. |
Hatton SN, Huynh KH, Bonilha L, Abela E, Alhusaini S, Altmann A, Alvim MKM, Balachandra AR, Bartolini E, Bender B, Bernasconi N, Bernasconi A, Bernhardt B, Bargallo N, Caldairou B, Caligiuri ME, Carr SJA, Cavalleri GL, Cendes F, Concha L, Davoodi-Bojd E, Desmond PM, Devinsky O, Doherty CP, Domin M, Duncan JS, Focke NK, Foley SF, Gambardella A, Gleichgerrcht E, Guerrini R, Hamandi K, Ishikawa A, Keller SS, Kochunov PV, Kotikalapudi R, Kreilkamp BAK, Kwan P, Labate A, Langner S, Lenge M, Liu M, Lui E, Martin P, Mascalchi M, Moreira JCV, Morita-Sherman ME, O'Brien TJ, Pardoe HR, Pariente JC, Ribeiro LF, Richardson MP, Rocha CS, Rodríguez-Cruces R, Rosenow F, Severino M, Sinclair B, Soltanian-Zadeh H, Striano P, Taylor PN, Thomas RH, Tortora D, Velakoulis D, Vezzani A, Vivash L, von Podewils F, Vos SB, Weber B, Winston GP, Yasuda CL, Zhu AH, Thompson PM, Whelan CD, Jahanshad N, Sisodiya SM, McDonald CR |
Brain : a journal of neurology |
32814957 |
Brain |
2020 Aug 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32814957 |
| Mapping brain asymmetry in health and disease through the ENIGMA consortium. |
Kong XZ, Postema MC, Guadalupe T, de Kovel C, Boedhoe PSW, Hoogman M, Mathias SR, van Rooij D, Schijven D, Glahn DC, Medland SE, Jahanshad N, Thomopoulos SI, Turner JA, Buitelaar J, van Erp TGM, Franke B, Fisher SE, van den Heuvel OA, Schmaal L, Thompson PM, Francks C |
Human brain mapping |
32420672 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32420672 |
| Consortium neuroscience of attention deficit/hyperactivity disorder and autism spectrum disorder: The ENIGMA adventure. |
Hoogman M, van Rooij D, Klein M, Boedhoe P, Ilioska I, Li T, Patel Y, Postema MC, Zhang-James Y, Anagnostou E, Arango C, Auzias G, Banaschewski T, Bau CHD, Behrmann M, Bellgrove MA, Brandeis D, Brem S, Busatto GF, Calderoni S, Calvo R, Castellanos FX, Coghill D, Conzelmann A, Daly E, Deruelle C, Dinstein I, Durston S, Ecker C, Ehrlich S, Epstein JN, Fair DA, Fitzgerald J, Freitag CM, Frodl T, Gallagher L, Grevet EH, Haavik J, Hoekstra PJ, Janssen J, Karkashadze G, King JA, Konrad K, Kuntsi J, Lazaro L, Lerch JP, Lesch KP, Louza MR, Luna B, Mattos P, McGrath J, Muratori F, Murphy C, Nigg JT, Oberwelland-Weiss E, O'Gorman Tuura RL, O'Hearn K, Oosterlaan J, Parellada M, Pauli P, Plessen KJ, Ramos-Quiroga JA, Reif A, Reneman L, Retico A, Rosa PGP, Rubia K, Shaw P, Silk TJ, Tamm L, Vilarroya O, Walitza S, Jahanshad N, Faraone SV, Francks C, van den Heuvel OA, Paus T, Thompson PM, Buitelaar JK, Franke B |
Human brain mapping |
32420680 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32420680 |
| Brain aging in major depressive disorder: results from the ENIGMA major depressive disorder working group. |
Han LKM, Dinga R, Hahn T, Ching CRK, Eyler LT, Aftanas L, Aghajani M, Aleman A, Baune BT, Berger K, Brak I, Filho GB, Carballedo A, Connolly CG, Couvy-Duchesne B, Cullen KR, Dannlowski U, Davey CG, Dima D, Duran FLS, Enneking V, Filimonova E, Frenzel S, Frodl T, Fu CHY, Godlewska BR, Gotlib IH, Grabe HJ, Groenewold NA, Grotegerd D, Gruber O, Hall GB, Harrison BJ, Hatton SN, Hermesdorf M, Hickie IB, Ho TC, Hosten N, Jansen A, Kähler C, Kircher T, Klimes-Dougan B, Krämer B, Krug A, Lagopoulos J, Leenings R, MacMaster FP, MacQueen G, McIntosh A, McLellan Q, McMahon KL, Medland SE, Mueller BA, Mwangi B, Osipov E, Portella MJ, Pozzi E, Reneman L, Repple J, Rosa PGP, Sacchet MD, Sämann PG, Schnell K, Schrantee A, Simulionyte E, Soares JC, Sommer J, Stein DJ, Steinsträter O, Strike LT, Thomopoulos SI, van Tol MJ, Veer IM, Vermeiren RRJM, Walter H, van der Wee NJA, van der Werff SJA, Whalley H, Winter NR, Wittfeld K, Wright MJ, Wu MJ, Völzke H, Yang TT, Zannias V, de Zubicaray GI, Zunta-Soares GB, Abé C, Alda M, Andreassen OA, Bøen E, Bonnin CM, Canales-Rodriguez EJ, Cannon D, Caseras X, Chaim-Avancini TM, Elvsåshagen T, Favre P, Foley SF, Fullerton JM, Goikolea JM, Haarman BCM, Hajek T, Henry C, Houenou J, Howells FM, Ingvar M, Kuplicki R, Lafer B, Landén M, Machado-Vieira R, Malt UF, McDonald C, Mitchell PB, Nabulsi L, Otaduy MCG, Overs BJ, Polosan M, Pomarol-Clotet E, Radua J, Rive MM, Roberts G, Ruhe HG, Salvador R, Sarró S, Satterthwaite TD, Savitz J, Schene AH, Schofield PR, Serpa MH, Sim K, Soeiro-de-Souza MG, Sutherland AN, Temmingh HS, Timmons GM, Uhlmann A, Vieta E, Wolf DH, Zanetti MV, Jahanshad N, Thompson PM, Veltman DJ, Penninx BWJH, Marquand AF, Cole JH, Schmaal L |
Molecular psychiatry |
32424236 |
Mol Psychiatry |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32424236 |
| Cognitive and brain development is independently influenced by socioeconomic status and polygenic scores for educational attainment. |
Judd N, Sauce B, Wiedenhoeft J, Tromp J, Chaarani B, Schliep A, van Noort B, Penttilä J, Grimmer Y, Insensee C, Becker A, Banaschewski T, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Grigis A, Gowland P, Heinz A, Ittermann B, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Papadopoulos Orfanos D, Paus T, Poustka L, Hohmann S, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Garavan H, Klingberg T |
Proceedings of the National Academy of Sciences of the United States of America |
32430323 |
Proc Natl Acad Sci U S A |
2020 Jun 2 |
https://www.ncbi.nlm.nih.gov/pubmed/32430323 |
| Isometry Invariant Shape Descriptors for Abnormality Detection on Brain Surfaces Affected by Alzheimer's Disease. |
Tu Y, Wen C, Zhang W, Wu J, Zhang J, Chen K, Caselli RJ, Reiman EM, Reiman EM, Wang Y |
Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference |
30440425 |
Annu Int Conf IEEE Eng Med Biol Soc |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30440425 |
| Dissociable Disruptions in Thalamic and Hippocampal Resting-State Functional Connectivity in Youth with 22q11.2 Deletions. |
Schleifer C, Lin A, Kushan L, Ji JL, Yang G, Bearden CE, Anticevic A |
The Journal of neuroscience : the official journal of the Society for Neuroscience |
30478034 |
J Neurosci |
2019 Feb 13 |
https://www.ncbi.nlm.nih.gov/pubmed/30478034 |
| Grey Matter Volume Differences Associated with Extremely Low Levels of Cannabis Use in Adolescence. |
Orr C, Spechler P, Cao Z, Albaugh M, Chaarani B, Mackey S, D'Souza D, Allgaier N, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Burke Quinlan E, Conrod P, Desrivières S, Flor H, Frouin V, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Nees F, Papadopoulos Orfanos D, Paus T, Poustka L, Millenet S, Fröhner JH, Radhakrishnan R, Smolka MN, Walter H, Whelan R, Schumann G, Potter A, Garavan H |
The Journal of neuroscience : the official journal of the Society for Neuroscience |
30643026 |
J Neurosci |
2019 Mar 6 |
https://www.ncbi.nlm.nih.gov/pubmed/30643026 |
| Uncovering Biologically Coherent Peripheral Signatures of Health and Risk for Alzheimer's Disease in the Aging Brain. |
Riedel BC, Daianu M, Ver Steeg G, Mezher A, Salminen LE, Galstyan A, Thompson PM, Alzheimer’s Disease Neuroimaging Initiative |
Frontiers in aging neuroscience |
30555318 |
Front Aging Neurosci |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30555318 |
| Decreased functional connectivity of hippocampal subregions and methylation of the NR3C1 gene in Han Chinese adults who lost their only child. |
Qi R, Luo Y, Zhang L, Weng Y, Surento W, Xu Q, Jahanshad N, Li L, Cao Z, Lu GM, Thompson PM |
Psychological medicine |
31983347 |
Psychol Med |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31983347 |
| ENIGMA-DTI: Translating reproducible white matter deficits into personalized vulnerability metrics in cross-diagnostic psychiatric research. |
Kochunov P, Hong LE, Dennis EL, Morey RA, Tate DF, Wilde EA, Logue M, Kelly S, Donohoe G, Favre P, Houenou J, Ching CRK, Holleran L, Andreassen OA, van Velzen LS, Schmaal L, Villalón-Reina JE, Bearden CE, Piras F, Spalletta G, van den Heuvel OA, Veltman DJ, Stein DJ, Ryan MC, Tan Y, van Erp TGM, Turner JA, Haddad L, Nir TM, Glahn DC, Thompson PM, Jahanshad N |
Human brain mapping |
32301246 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32301246 |
| An overview of the first 5 years of the ENIGMA obsessive-compulsive disorder working group: The power of worldwide collaboration. |
van den Heuvel OA, Boedhoe PSW, Bertolin S, Bruin WB, Francks C, Ivanov I, Jahanshad N, Kong XZ, Kwon JS, O'Neill J, Paus T, Patel Y, Piras F, Schmaal L, Soriano-Mas C, Spalletta G, van Wingen GA, Yun JY, Vriend C, Simpson HB, van Rooij D, Hoexter MQ, Hoogman M, Buitelaar JK, Arnold P, Beucke JC, Benedetti F, Bollettini I, Bose A, Brennan BP, De Nadai AS, Fitzgerald K, Gruner P, Grünblatt E, Hirano Y, Huyser C, James A, Koch K, Kvale G, Lazaro L, Lochner C, Marsh R, Mataix-Cols D, Morgado P, Nakamae T, Nakao T, Narayanaswamy JC, Nurmi E, Pittenger C, Reddy YCJ, Sato JR, Soreni N, Stewart SE, Taylor SF, Tolin D, Thomopoulos SI, Veltman DJ, Venkatasubramanian G, Walitza S, Wang Z, Thompson PM, Stein DJ, ENIGMA-OCD working group |
Human brain mapping |
32154629 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32154629 |
| Mapping Subcortical Brain Alterations in 22q11.2 Deletion Syndrome: Effects of Deletion Size and Convergence With Idiopathic Neuropsychiatric Illness. |
Ching CRK, Gutman BA, Sun D, Villalon Reina J, Ragothaman A, Isaev D, Zavaliangos-Petropulu A, Lin A, Jonas RK, Kushan L, Pacheco-Hansen L, Vajdi A, Forsyth JK, Jalbrzikowski M, Bakker G, van Amelsvoort T, Antshel KM, Fremont W, Kates WR, Campbell LE, McCabe KL, Craig MC, Daly E, Gudbrandsen M, Murphy CM, Murphy DG, Murphy KC, Fiksinski A, Koops S, Vorstman J, Crowley TB, Emanuel BS, Gur RE, McDonald-McGinn DM, Roalf DR, Ruparel K, Schmitt JE, Zackai EH, Durdle CA, Goodrich-Hunsaker NJ, Simon TJ, Bassett AS, Butcher NJ, Chow EWC, Vila-Rodriguez F, Cunningham A, Doherty J, Linden DE, Moss H, Owen MJ, van den Bree M, Crossley NA, Repetto GM, Thompson PM, Bearden CE |
The American journal of psychiatry |
32046535 |
Am J Psychiatry |
2020 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32046535 |
| Brain structural covariance networks in obsessive-compulsive disorder: a graph analysis from the ENIGMA Consortium. |
Yun JY, Boedhoe PSW, Vriend C, Jahanshad N, Abe Y, Ameis SH, Anticevic A, Arnold PD, Batistuzzo MC, Benedetti F, Beucke JC, Bollettini I, Bose A, Brem S, Calvo A, Cheng Y, Cho KIK, Ciullo V, Dallaspezia S, Denys D, Feusner JD, Fouche JP, Giménez M, Gruner P, Hibar DP, Hoexter MQ, Hu H, Huyser C, Ikari K, Kathmann N, Kaufmann C, Koch K, Lazaro L, Lochner C, Marques P, Marsh R, Martínez-Zalacaín I, Mataix-Cols D, Menchón JM, Minuzzi L, Morgado P, Moreira P, Nakamae T, Nakao T, Narayanaswamy JC, Nurmi EL, O'Neill J, Piacentini J, Piras F, Piras F, Reddy YCJ, Sato JR, Simpson HB, Soreni N, Soriano-Mas C, Spalletta G, Stevens MC, Szeszko PR, Tolin DF, Venkatasubramanian G, Walitza S, Wang Z, van Wingen GA, Xu J, Xu X, Zhao Q, ENIGMA-OCD working group, Thompson PM, Stein DJ, van den Heuvel OA, Kwon JS |
Brain : a journal of neurology |
32040561 |
Brain |
2020 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32040561 |
| Subcortical surface morphometry in substance dependence: An ENIGMA addiction working group study. |
Chye Y, Mackey S, Gutman BA, Ching CRK, Batalla A, Blaine S, Brooks S, Caparelli EC, Cousijn J, Dagher A, Foxe JJ, Goudriaan AE, Hester R, Hutchison K, Jahanshad N, Kaag AM, Korucuoglu O, Li CR, London ED, Lorenzetti V, Luijten M, Martin-Santos R, Meda SA, Momenan R, Morales A, Orr C, Paulus MP, Pearlson G, Reneman L, Schmaal L, Sinha R, Solowij N, Stein DJ, Stein EA, Tang D, Uhlmann A, van Holst R, Veltman DJ, Verdejo-Garcia A, Wiers RW, Yücel M, Thompson PM, Conrod P, Garavan H |
Addiction biology |
31746534 |
Addict Biol |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/31746534 |
| Optimizing Connectivity-Driven Brain Parcellation Using Ensemble Clustering. |
Kurmukov A, Mussabaeva A, Denisova Y, Moyer D, Jahanshad N, Thompson PM, Gutman BA |
Brain connectivity |
32264696 |
Brain Connect |
2020 May |
https://www.ncbi.nlm.nih.gov/pubmed/32264696 |
| Genetic contributors to risk of schizophrenia in the presence of a 22q11.2 deletion. |
Cleynen I, Engchuan W, Hestand MS, Heung T, Holleman AM, Johnston HR, Monfeuga T, McDonald-McGinn DM, Gur RE, Morrow BE, Swillen A, Vorstman JAS, Bearden CE, Chow EWC, van den Bree M, Emanuel BS, Vermeesch JR, Warren ST, Owen MJ, Chopra P, Cutler DJ, Duncan R, Kotlar AV, Mulle JG, Voss AJ, Zwick ME, Diacou A, Golden A, Guo T, Lin JR, Wang T, Zhang Z, Zhao Y, Marshall C, Merico D, Jin A, Lilley B, Salmons HI, Tran O, Holmans P, Pardinas A, Walters JTR, Demaerel W, Boot E, Butcher NJ, Costain GA, Lowther C, Evers R, van Amelsvoort TAMJ, van Duin E, Vingerhoets C, Breckpot J, Devriendt K, Vergaelen E, Vogels A, Crowley TB, McGinn DE, Moss EM, Sharkus RJ, Unolt M, Zackai EH, Calkins ME, Gallagher RS, Gur RC, Tang SX, Fritsch R, Ornstein C, Repetto GM, Breetvelt E, Duijff SN, Fiksinski A, Moss H, Niarchou M, Murphy KC, Prasad SE, Daly EM, Gudbrandsen M, Murphy CM, Murphy DG, Buzzanca A, Fabio FD, Digilio MC, Pontillo M, Marino B, Vicari S, Coleman K, Cubells JF, Ousley OY, Carmel M, Gothelf D, Mekori-Domachevsky E, Michaelovsky E, Weinberger R, Weizman A, Kushan L, Jalbrzikowski M, Armando M, Eliez S, Sandini C, Schneider M, Béna FS, Antshel KM, Fremont W, Kates WR, Belzeaux R, Busa T, Philip N, Campbell LE, McCabe KL, Hooper SR, Schoch K, Shashi V, Simon TJ, Tassone F, Arango C, Fraguas D, García-Miñaúr S, Morey-Canyelles J, Rosell J, Suñer DH, Raventos-Simic J, International 22q11.2DS Brain and Behavior Consortium, Epstein MP, Williams NM, Bassett AS |
Molecular psychiatry |
32015465 |
Mol Psychiatry |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/32015465 |
| Evidence for similar structural brain anomalies in youth and adult attention-deficit/hyperactivity disorder: a machine learning analysis. |
Zhang-James Y, Helminen EC, Liu J, ENIGMA-ADHD Working Group, Franke B, Hoogman M, Faraone SV |
Translational psychiatry |
33526765 |
Transl Psychiatry |
2021 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/33526765 |
| Cortical volume abnormalities in posttraumatic stress disorder: an ENIGMA-psychiatric genomics consortium PTSD workgroup mega-analysis. |
Wang X, Xie H, Chen T, Cotton AS, Salminen LE, Logue MW, Clarke-Rubright EK, Wall J, Dennis EL, O'Leary BM, Abdallah CG, Andrew E, Baugh LA, Bomyea J, Bruce SE, Bryant R, Choi K, Daniels JK, Davenport ND, Davidson RJ, DeBellis M, deRoon-Cassini T, Disner SG, Fani N, Fercho KA, Fitzgerald J, Forster GL, Frijling JL, Geuze E, Gomaa H, Gordon EM, Grupe D, Harpaz-Rotem I, Haswell CC, Herzog JI, Hofmann D, Hollifield M, Hosseini B, Hudson AR, Ipser J, Jahanshad N, Jovanovic T, Kaufman ML, King AP, Koch SBJ, Koerte IK, Korgaonkar MS, Krystal JH, Larson C, Lebois LAM, Levy I, Li G, Magnotta VA, Manthey A, May G, McLaughlin KA, Mueller SC, Nawijn L, Nelson SM, Neria Y, Nitschke JB, Olff M, Olson EA, Peverill M, Phan KL, Rashid FM, Ressler K, Rosso IM, Sambrook K, Schmahl C, Shenton ME, Sierk A, Simons JS, Simons RM, Sponheim SR, Stein MB, Stein DJ, Stevens JS, Straube T, Suarez-Jimenez B, Tamburrino M, Thomopoulos SI, van der Wee NJA, van der Werff SJA, van Erp TGM, van Rooij SJH, van Zuiden M, Varkevisser T, Veltman DJ, Vermeiren RRJM, Walter H, Wang L, Zhu Y, Zhu X, Thompson PM, Morey RA, Liberzon I |
Molecular psychiatry |
33288872 |
Mol Psychiatry |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/33288872 |
| Network-based atrophy modeling in the common epilepsies: A worldwide ENIGMA study. |
Larivière S, Rodríguez-Cruces R, Royer J, Caligiuri ME, Gambardella A, Concha L, Keller SS, Cendes F, Yasuda C, Bonilha L, Gleichgerrcht E, Focke NK, Domin M, von Podewills F, Langner S, Rummel C, Wiest R, Martin P, Kotikalapudi R, O'Brien TJ, Sinclair B, Vivash L, Desmond PM, Alhusaini S, Doherty CP, Cavalleri GL, Delanty N, Kälviäinen R, Jackson GD, Kowalczyk M, Mascalchi M, Semmelroch M, Thomas RH, Soltanian-Zadeh H, Davoodi-Bojd E, Zhang J, Lenge M, Guerrini R, Bartolini E, Hamandi K, Foley S, Weber B, Depondt C, Absil J, Carr SJA, Abela E, Richardson MP, Devinsky O, Severino M, Striano P, Tortora D, Hatton SN, Vos SB, Duncan JS, Whelan CD, Thompson PM, Sisodiya SM, Bernasconi A, Labate A, McDonald CR, Bernasconi N, Bernhardt BC |
Science advances |
33208365 |
Sci Adv |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/33208365 |
| Smaller hippocampal CA1 subfield volume in posttraumatic stress disorder. |
Chen LW, Sun D, Davis SL, Haswell CC, Dennis EL, Swanson CA, Whelan CD, Gutman B, Jahanshad N, Iglesias JE, Thompson P, Mid-Atlantic MIRECC Workgroup, Wagner HR, Saemann P, LaBar KS, Morey RA |
Depression and anxiety |
30256497 |
Depress Anxiety |
2018 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30256497 |
| Machine Learning for Large-Scale Quality Control of 3D Shape Models in Neuroimaging. |
Petrov D, Gutman BA, Yu SJ, van Erp TGM, Turner JA, Schmaal L, Veltman D, Wang L, Alpert K, Isaev D, Zavaliangos-Petropulu A, Ching CRK, Calhoun V, Glahn D, Satterthwaite TD, Andreasen OA, Borgwardt S, Howells F, Groenewold N, Voineskos A, Radua J, Potkin SG, Crespo-Facorro B, Tordesillas-Gutiérrez D, Shen L, Lebedeva I, Spalletta G, Donohoe G, Kochunov P, Rosa PGP, James A, Dannlowski U, Baune BT, Aleman A, Gotlib IH, Walter H, Walter M, Soares JC, Ehrlich S, Gur RC, Doan NT, Agartz I, Westlye LT, Harrisberger F, Riecher-Rössler A, Uhlmann A, Stein DJ, Dickie EW, Pomarol-Clotet E, Fuentes-Claramonte P, Canales-Rodríguez EJ, Salvador R, Huang AJ, Roiz-Santiañez R, Cong S, Tomyshev A, Piras F, Vecchio D, Banaj N, Ciullo V, Hong E, Busatto G, Zanetti MV, Serpa MH, Cervenka S, Kelly S, Grotegerd D, Sacchet MD, Veer IM, Li M, Wu MJ, Irungu B, Walton E, Thompson PM |
Machine learning in medical imaging. MLMI (Workshop) |
30035274 |
Mach Learn Med Imaging |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/30035274 |
| Maturation of the Human Cerebral Cortex During Adolescence: Myelin or Dendritic Arbor? |
Patel Y, Shin J, Gowland PA, Pausova Z, Paus T, IMAGEN consortium |
Cerebral cortex (New York, N.Y. : 1991) |
30169567 |
Cereb Cortex |
2019 Jul 22 |
https://www.ncbi.nlm.nih.gov/pubmed/30169567 |
| Peer victimization and its impact on adolescent brain development and psychopathology. |
Quinlan EB, Barker ED, Luo Q, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Desrivières S, Flor H, Frouin V, Garavan H, Chaarani B, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Smolka MN, Fröhner JH, Walter H, Whelan R, Schumann G, IMAGEN Consortium |
Molecular psychiatry |
30542059 |
Mol Psychiatry |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30542059 |
| ADAPTIVE GRADIENT DESCENT OPTIMIZATION OF INITIAL MOMENTA FOR GEODESIC SHOOTING IN DIFFEOMORPHISMS. |
Fleishman GM, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
30546823 |
Proc IEEE Int Symp Biomed Imaging |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30546823 |
| Reply to: New Meta- and Mega-analyses of Magnetic Resonance Imaging Findings in Schizophrenia: Do They Really Increase Our Knowledge About the Nature of the Disease Process? |
van Erp TGM, Walton E, Hibar DP, Schmaal L, Jiang W, Glahn DC, Pearlson GD, Yao N, Fukunaga M, Hashimoto R, Okada N, Yamamori H, Clark VP, Mueller BA, de Zwarte SMC, Ophoff RA, van Haren NEM, Andreassen OA, Gurholt TP, Gruber O, Kraemer B, Richter A, Calhoun VD, Crespo-Facorro B, Roiz-Santiañez R, Tordesillas-Gutiérrez D, Loughland C, Catts S, Fullerton JM, Green MJ, Henskens F, Jablensky A, Mowry BJ, Pantelis C, Quidé Y, Schall U, Scott RJ, Cairns MJ, Seal M, Tooney PA, Rasser PE, Cooper G, Shannon Weickert C, Weickert TW, Hong E, Kochunov P, Gur RE, Gur RC, Ford JM, Macciardi F, Mathalon DH, Potkin SG, Preda A, Fan F, Ehrlich S, King MD, De Haan L, Veltman DJ, Assogna F, Banaj N, de Rossi P, Iorio M, Piras F, Spalletta G, Pomarol-Clotet E, Kelly S, Ciufolini S, Radua J, Murray R, Marques TR, Simmons A, Borgwardt S, Schönborn-Harrisberger F, Riecher-Rössler A, Smieskova R, Alpert KI, Bertolino A, Bonvino A, Di Giorgio A, Neilson E, Mayer AR, Yun JY, Cannon DM, Lebedeva I, Tomyshev AS, Akhadov T, Kaleda V, Fatouros-Bergman H, Flyckt L, Karolinska Schizophrenia Project, Rosa PGP, Serpa MH, Zanetti MV, Hoschl C, Skoch A, Spaniel F, Tomecek D, McIntosh AM, Whalley HC, Knöchel C, Oertel-Knöchel V, Howells FM, Stein DJ, Temmingh HS, Uhlmann A, Lopez-Jaramillo C, Dima D, Faskowitz JI, Gutman BA, Jahanshad N, Thompson PM, Turner JA |
Biological psychiatry |
30470561 |
Biol Psychiatry |
2019 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30470561 |
| The Association Between Familial Risk and Brain Abnormalities Is Disease Specific: An ENIGMA-Relatives Study of Schizophrenia and Bipolar Disorder. |
de Zwarte SMC, Brouwer RM, Agartz I, Alda M, Aleman A, Alpert KI, Bearden CE, Bertolino A, Bois C, Bonvino A, Bramon E, Buimer EEL, Cahn W, Cannon DM, Cannon TD, Caseras X, Castro-Fornieles J, Chen Q, Chung Y, De la Serna E, Di Giorgio A, Doucet GE, Eker MC, Erk S, Fears SC, Foley SF, Frangou S, Frankland A, Fullerton JM, Glahn DC, Goghari VM, Goldman AL, Gonul AS, Gruber O, de Haan L, Hajek T, Hawkins EL, Heinz A, Hillegers MHJ, Hulshoff Pol HE, Hultman CM, Ingvar M, Johansson V, Jönsson EG, Kane F, Kempton MJ, Koenis MMG, Kopecek M, Krabbendam L, Krämer B, Lawrie SM, Lenroot RK, Marcelis M, Marsman JC, Mattay VS, McDonald C, Meyer-Lindenberg A, Michielse S, Mitchell PB, Moreno D, Murray RM, Mwangi B, Najt P, Neilson E, Newport J, van Os J, Overs B, Ozerdem A, Picchioni MM, Richter A, Roberts G, Aydogan AS, Schofield PR, Simsek F, Soares JC, Sugranyes G, Toulopoulou T, Tronchin G, Walter H, Wang L, Weinberger DR, Whalley HC, Yalin N, Andreassen OA, Ching CRK, van Erp TGM, Turner JA, Jahanshad N, Thompson PM, Kahn RS, van Haren NEM |
Biological psychiatry |
31443932 |
Biol Psychiatry |
2019 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31443932 |
| Systemic Mitochondrial Oxidative Phosphorylation Protein Levels Correlate with Neuroimaging Measures in Chronically HIV-Infected Individuals. |
Kallianpur KJ, Walker M, Gerschenson M, Shikuma CM, Gangcuangco LMA, Kohorn L, Libutti DE, Nir TM, Jahanshad N, Thompson PM, Paul R |
AIDS research and human retroviruses |
31617381 |
AIDS Res Hum Retroviruses |
2020 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/31617381 |
| Heavy drinking in adolescents is associated with change in brainstem microstructure and reward sensitivity. |
Galinowski A, Miranda R, Lemaitre H, Artiges E, Paillère Martinot ML, Filippi I, Penttilä J, Grimmer Y, van Noort BM, Stringaris A, Becker A, Isensee C, Struve M, Fadai T, Kappel V, Goodman R, Banaschewski T, Bokde ALW, Bromberg U, Brühl R, Büchel C, Cattrell A, Conrod P, Desrivières S, Flor H, Fröhner JH, Frouin V, Gallinat J, Garavan H, Gowland P, Heinz A, Hohmann S, Jurk S, Millenet S, Nees F, Papadopoulos-Orfanos D, Poustka L, Quinlan EB, Smolka MN, Walter H, Whelan R, Schumann G, Martinot JL, IMAGEN Consortium |
Addiction biology |
31328396 |
Addict Biol |
2020 May |
https://www.ncbi.nlm.nih.gov/pubmed/31328396 |
| Lifespan investigation of brain volumetric changes associated with substance use disorders. |
Shi R, Xiang S, Alnæs D, Chen D, Chen Z, Banaschewski T, Barker GJ, Bokde ALW, Desrivières S, Flor H, Garavan H, Gowland P, Grigis A, Heinz A, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Poustka L, Smolka MN, Hohmann S, Vaidya N, Walter H, Whelan R, Schumann G, Sahakian BJ, Westlye LT, Robbins TW, Lin X, Jia T, Feng J, IMAGEN Consortium |
medRxiv : the preprint server for health sciences |
40492099 |
medRxiv |
2025 May 28 |
https://www.ncbi.nlm.nih.gov/pubmed/40492099 |
| Adolescent maturation of cortical excitation-inhibition ratio based on individualized biophysical network modeling. |
Saberi A, Wischnewski KJ, Jung K, Lotter LD, Schaare HL, Banaschewski T, Barker GJ, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Papadopoulos Orfanos D, Lemaitre H, Poustka L, Hohmann S, Holz N, Baeuchl C, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, IMAGEN Consortium, Paus T, Dukart J, Bernhardt BC, Popovych OV, Eickhoff SB, Valk SL |
Science advances |
40465711 |
Sci Adv |
2025 Jun 6 |
https://www.ncbi.nlm.nih.gov/pubmed/40465711 |
| Structural Covariance of Early Visual Cortex Is Negatively Associated With Posttraumatic Stress Disorder Symptoms: A Mega-Analysis From the ENIGMA PTSD Working Group. |
Harnett NG, Joshi S, Kumar P, Russell C, Dillon DG, Baker JT, Pizzagalli DA, Kaufman ML, Nickerson LD, Jahanshad N, Salminen LE, Thomopoulos SI, Frijling JL, Veltman DJ, Koch SBJ, Nawijn L, van Zuiden M, Zhu Y, Li G, Ipser J, Zhu X, Ravid O, Zilcha-Mano S, Lazarov A, Suarez-Jimenez B, Sun D, Hussain A, Huggins AA, Jovanovic T, van Rooij SJH, Fani N, Hudson AR, Sierk A, Manthey A, Walter H, van der Wee NJA, van der Werff SJA, Vermeiren RRJM, Říha P, Lebois LAM, Rosso IM, Olson EA, Liberzon I, Angstadt M, Disner SG, Sponheim SR, Koopowitz SM, Hofmann D, Qi R, Maron-Katz A, Kunch A, Xie H, El-Hage W, Berg H, Bruce SE, McLaughlin KA, Peverill M, Sambrook K, Ross M, Herringa RJ, Nitschke JB, Davidson RJ, deRoon-Cassini TA, Tomas CW, Fitzgerald JM, Blackford JU, Olatunji BO, Nelson SM, Gordon EM, Densmore M, Théberge J, Neufeld RWJ, Olff M, Wang L, Stein DJ, Neria Y, Stevens JS, Mueller SC, Daniels JK, Rektor I, King A, Davenport ND, Straube T, Lu G, Etkin A, Wang X, Quidé Y, Lissek S, Cisler J, Grupe DW, Larson C, Feola B, May G, Abdallah CG, Lanius R, Thompson PM, Morey RA, Ressler KJ |
Biological psychiatry. Cognitive neuroscience and neuroimaging |
40712699 |
Biol Psychiatry Cogn Neurosci Neuroimaging |
2026 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/40712699 |
| Structural Brain Correlates of Childhood Inhibited Temperament: An ENIGMA-Anxiety Mega-Analysis. |
Bas-Hoogendam JM, Bernstein RA, Benson BE, Frank SEC, Buss KA, Gunther KE, Pérez-Edgar K, Salum GA, Jackowski A, Bressan RA, Zugman A, Degnan KA, Filippi CA, Fox NA, Henderson HA, Tang A, Zeytinoglu S, Harrewijn A, Hillegers MHJ, Muetzel RL, White T, van IJzendoorn MH, Schwartz CE, Felicione JM, DeYoung KA, Shackman AJ, Smith JF, Tillman RM, van den Berg YHM, Cillessen AHN, Roelofs K, Tyborowska A, Hill SY, Battaglia M, Tettamanti M, Dougherty LR, Jin J, Klein DN, Leung HC, Avery SN, Blackford JU, Clauss JA, Bjork JM, Hettema JM, Moore AA, Roberson-Nay R, Sawyers C, Hayden EP, Liu P, Vandermeer MRJ, Goldsmith HH, Planalp EM, Nichols TE, Thompson PM, Westenberg PM, van der Wee NJA, Groenewold NA, Stein DJ, Winkler AM, Pine DS |
Journal of the American Academy of Child and Adolescent Psychiatry |
40619094 |
J Am Acad Child Adolesc Psychiatry |
2026 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/40619094 |
| Mapping the coupling between tract reachability and cortical geometry of the human brain. |
Li D, Zalesky A, Wang Y, Wang H, Ma L, Cheng L, Banaschewski T, Barker GJ, Bokde ALW, Brühl R, Desrivières S, Flor H, Garavan H, Gowland P, Grigis A, Heinz A, Lemaître H, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Poustka L, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Jia T, Chu C, Fan L, IMAGEN Consortium |
Nature communications |
40796752 |
Nat Commun |
2025 Aug 12 |
https://www.ncbi.nlm.nih.gov/pubmed/40796752 |
| A psychobiological resilience factor for mental health across the lifespan. |
Jia T, Yang Z, Xiang S, Zhai R, Zheng C, Hu Y, Banaschewski T, Bokde A, Desrivières S, Flor H, Garavan H, Gowland P, Grigis A, Heinz A, Martinot JL, Martinot ML, Artiges E, Nees F, Orfanos DP, Poustka L, Smolka M, Hohmann S, Holz N, Vaidya N, Walter H, Whelan R, Schumann G, Feng J, Sahakian B, Xie C |
Research square |
41282168 |
Res Sq |
2025 Oct 29 |
https://www.ncbi.nlm.nih.gov/pubmed/41282168 |
| Cortical morphometry might predict currently prescribed vs. discontinued medications in bipolar disorder, even after controlling for the cumulative dose effects: An ENIGMA mega-analysis. |
Fortea L, Rivas-Fernández MÁ, Solanes A, King S, Nabulsi L, Alda M, Alexander N, Bauer J, Benedetti F, Borgers T, Bravi B, Bollettini I, Canales-Rodríguez EJ, Cannon DM, Dannlowski U, Di Giorgio A, Flinkenflügel K, Fuentes-Claramonte P, Furlong L, Gotlib IH, Green MJ, Grotegerd D, Haarman BCM, Hahn T, Hajek T, Hidalgo-Mazzei D, Howells F, Jamalabadi H, Jansen A, Kang MJY, Karantonis JA, Karuk A, Kircher T, Leehr EJ, Im Y, McWhinney S, Meinert S, Melloni EM, Nenadić I, Pfennig A, Poletti S, Pomarol-Clotet E, Quidé Y, Rossell SL, Sacchet MD, Salvador R, Sambataro F, Sarró S, Scheffler F, Sim K, Stein DJ, Stein F, Straube B, Temmingh H, Teutenberg L, Thomas-Odenthal F, Thomopoulos SI, Van Rheenen TE, Vilajosana E, Zeng LL, Andreassen OA, Vieta E, Thompson PM, McDonald C, Ching CRK, Radua J, ENIGMA Bipolar Disorder Working Group |
Molecular psychiatry |
41896364 |
Mol Psychiatry |
2026 Mar 27 |
https://www.ncbi.nlm.nih.gov/pubmed/41896364 |
| Investigating brain connectivity heritability in a twin study using diffusion imaging data. |
Shen KK, Rose S, Fripp J, McMahon KL, de Zubicaray GI, Martin NG, Thompson PM, Wright MJ, Salvado O |
NeuroImage |
24973604 |
Neuroimage |
2014 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/24973604 |
| Functional connectivity in autosomal dominant and late-onset Alzheimer disease. |
Thomas JB, Brier MR, Bateman RJ, Snyder AZ, Benzinger TL, Xiong C, Raichle M, Holtzman DM, Sperling RA, Mayeux R, Ghetti B, Ringman JM, Salloway S, McDade E, Rossor MN, Ourselin S, Schofield PR, Masters CL, Martins RN, Weiner MW, Thompson PM, Fox NC, Koeppe RA, Jack CR Jr, Mathis CA, Oliver A, Blazey TM, Moulder K, Buckles V, Hornbeck R, Chhatwal J, Schultz AP, Goate AM, Fagan AM, Cairns NJ, Marcus DS, Morris JC, Ances BM |
JAMA neurology |
25069482 |
JAMA Neurol |
2014 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/25069482 |
| Predictors of CNS injury as measured by proton magnetic resonance spectroscopy in the setting of chronic HIV infection and CART. |
Harezlak J, Cohen R, Gongvatana A, Taylor M, Buchthal S, Schifitto G, Zhong J, Daar ES, Alger JR, Brown M, Singer EJ, Campbell TB, McMahon D, So YT, Yiannoutsos CT, Navia BA, HIV Neuroimaging Consortium |
Journal of neurovirology |
24696364 |
J Neurovirol |
2014 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/24696364 |
| Visual hallucinations are associated with hyperconnectivity between the amygdala and visual cortex in people with a diagnosis of schizophrenia. |
Ford JM, Palzes VA, Roach BJ, Potkin SG, van Erp TG, Turner JA, Mueller BA, Calhoun VD, Voyvodic J, Belger A, Bustillo J, Vaidya JG, Preda A, McEwen SC, Functional Imaging Biomedical Informatics Research Network, Mathalon DH |
Schizophrenia bulletin |
24619536 |
Schizophr Bull |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/24619536 |
| Physical activity, body mass index, and brain atrophy in Alzheimer's disease. |
Boyle CP, Raji CA, Erickson KI, Lopez OL, Becker JT, Gach HM, Longstreth WT Jr, Teverovskiy L, Kuller LH, Carmichael OT, Thompson PM |
Neurobiology of aging |
25248607 |
Neurobiol Aging |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25248607 |
| Genome-wide interaction analysis reveals replicated epistatic effects on brain structure. |
Hibar DP, Stein JL, Jahanshad N, Kohannim O, Hua X, Toga AW, McMahon KL, de Zubicaray GI, Martin NG, Wright MJ, Alzheimer's Disease Neuroimaging Initiative, Weiner MW, Thompson PM |
Neurobiology of aging |
25264344 |
Neurobiol Aging |
2015 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25264344 |
| Frontal and striatal alterations associated with psychopathic traits in adolescents. |
Yang Y, Narr KL, Baker LA, Joshi SH, Jahanshad N, Raine A, Thompson PM |
Psychiatry research |
25676553 |
Psychiatry Res |
2015 Mar 30 |
https://www.ncbi.nlm.nih.gov/pubmed/25676553 |
| Subcortical shape and volume abnormalities in an elderly HIV+ cohort. |
Wade BS, Valcour V, Busovaca E, Esmaeili-Firidouni P, Joshi SH, Wang Y, Thompson PM |
Proceedings of SPIE--the International Society for Optical Engineering |
25844123 |
Proc SPIE Int Soc Opt Eng |
2015 Mar 17 |
https://www.ncbi.nlm.nih.gov/pubmed/25844123 |
| Shared genetic variance between obesity and white matter integrity in Mexican Americans. |
Spieker EA, Kochunov P, Rowland LM, Sprooten E, Winkler AM, Olvera RL, Almasy L, Duggirala R, Fox PT, Blangero J, Glahn DC, Curran JE |
Frontiers in genetics |
25763009 |
Front Genet |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/25763009 |
| Thalamic alterations in preterm neonates and their relation to ventral striatum disturbances revealed by a combined shape and pose analysis. |
Lao Y, Wang Y, Shi J, Ceschin R, Nelson MD, Panigrahy A, Leporé N |
Brain structure & function |
25366970 |
Brain Struct Funct |
2016 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/25366970 |
| Investigating the genetics of hippocampal volume in older adults without dementia. |
Mather KA, Armstrong NJ, Wen W, Kwok JB, Assareh AA, Thalamuthu A, Reppermund S, Duesing K, Wright MJ, Ames D, Trollor JN, Brodaty H, Schofield PR, Sachdev PS |
PloS one |
25625606 |
PLoS One |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/25625606 |
| A novel cortical thickness estimation method based on volumetric Laplace-Beltrami operator and heat kernel. |
Wang G, Zhang X, Su Q, Shi J, Caselli RJ, Wang Y, Alzheimer’s Disease Neuroimaging Initiative |
Medical image analysis |
25700360 |
Med Image Anal |
2015 May |
https://www.ncbi.nlm.nih.gov/pubmed/25700360 |
| Altered relationships between age and functional brain activation in adolescents at clinical high risk for psychosis. |
Karlsgodt KH, van Erp TG, Bearden CE, Cannon TD |
Psychiatry research |
24144510 |
Psychiatry Res |
2014 Jan 30 |
https://www.ncbi.nlm.nih.gov/pubmed/24144510 |
| Widespread Allelic Heterogeneity in Complex Traits. |
Hormozdiari F, Zhu A, Kichaev G, Ju CJ, Segrè AV, Joo JWJ, Won H, Sankararaman S, Pasaniuc B, Shifman S, Eskin E |
American journal of human genetics |
28475861 |
Am J Hum Genet |
2017 May 4 |
https://www.ncbi.nlm.nih.gov/pubmed/28475861 |
| Shape Analysis with Hyperbolic Wasserstein Distance. |
Shi J, Zhang W, Wang Y |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
28392672 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28392672 |
| EFhd2/Swiprosin-1 is a common genetic determinator for sensation-seeking/low anxiety and alcohol addiction. |
Mielenz D, Reichel M, Jia T, Quinlan EB, Stöckl T, Mettang M, Zilske D, Kirmizi-Alsan E, Schönberger P, Praetner M, Huber SE, Amato D, Schwarz M, Purohit P, Brachs S, Spranger J, Hess A, Büttner C, Ekici AB, Perez-Branguli F, Winner B, Rauschenberger V, Banaschewski T, Bokde ALW, Büchel C, Conrod PJ, Desrivières S, Flor H, Frouin V, Gallinat J, Garavan H, Gowland P, Heinz A, Martinot JL, Lemaitre H, Nees F, Paus T, Smolka MN, IMAGEN Consortium, Schambony A, Bäuerle T, Eulenburg V, Alzheimer C, Lourdusamy A, Schumann G, Müller CP |
Molecular psychiatry |
28397836 |
Mol Psychiatry |
2018 May |
https://www.ncbi.nlm.nih.gov/pubmed/28397836 |
| EMPOWERING CORTICAL THICKNESS MEASURES IN CLINICAL DIAGNOSIS OF ALZHEIMER'S DISEASE WITH SPHERICAL SPARSE CODING. |
Zhang J, Fan Y, Li Q, Thompson PM, Ye J, Wang Y |
Proceedings. IEEE International Symposium on Biomedical Imaging |
28959379 |
Proc IEEE Int Symp Biomed Imaging |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/28959379 |
| Genome-wide association analysis identifies common variants influencing infant brain volumes. |
Xia K, Zhang J, Ahn M, Jha S, Crowley JJ, Szatkiewicz J, Li T, Zou F, Zhu H, Hibar D, Thompson P, ENIGMA Consortium, Sullivan PF, Styner M, Gilmore JH, Knickmeyer RC |
Translational psychiatry |
28763065 |
Transl Psychiatry |
2017 Aug 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28763065 |
| Psychosocial Stress and Brain Function in Adolescent Psychopathology. |
Quinlan EB, Cattrell A, Jia T, Artiges E, Banaschewski T, Barker G, Bokde ALW, Bromberg U, Büchel C, Brühl R, Conrod PJ, Desrivieres S, Flor H, Frouin V, Gallinat J, Garavan H, Gowland P, Heinz A, Martinot JL, Paillère Martinot ML, Nees F, Papadopoulos-Orfanos D, Paus T, Poustka L, Smolka MN, Vetter NC, Walter H, Whelan R, Glennon JC, Buitelaar JK, Happé F, Loth E, Barker ED, Schumann G, IMAGEN Consortium |
The American journal of psychiatry |
28618856 |
Am J Psychiatry |
2017 Aug 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28618856 |
| Diverging volumetric trajectories following pediatric traumatic brain injury. |
Dennis EL, Faskowitz J, Rashid F, Babikian T, Mink R, Babbitt C, Johnson J, Giza CC, Jahanshad N, Thompson PM, Asarnow RF |
NeuroImage. Clinical |
28507895 |
Neuroimage Clin |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28507895 |
| Network-level assessment of reward-related activation in patients with ADHD and healthy individuals. |
von Rhein D, Beckmann CF, Franke B, Oosterlaan J, Heslenfeld DJ, Hoekstra PJ, Hartman CA, Luman M, Faraone SV, Cools R, Buitelaar JK, Mennes M |
Human brain mapping |
28176434 |
Hum Brain Mapp |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/28176434 |
| White matter disruption in moderate/severe pediatric traumatic brain injury: advanced tract-based analyses. |
Dennis EL, Jin Y, Villalon-Reina JE, Zhan L, Kernan CL, Babikian T, Mink RB, Babbitt CJ, Johnson JL, Giza CC, Thompson PM, Asarnow RF |
NeuroImage. Clinical |
25737958 |
Neuroimage Clin |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/25737958 |
| Deviant white matter structure in adults with attention-deficit/hyperactivity disorder points to aberrant myelination and affects neuropsychological performance. |
Onnink AM, Zwiers MP, Hoogman M, Mostert JC, Dammers J, Kan CC, Vasquez AA, Schene AH, Buitelaar J, Franke B |
Progress in neuro-psychopharmacology & biological psychiatry |
25956761 |
Prog Neuropsychopharmacol Biol Psychiatry |
2015 Dec 3 |
https://www.ncbi.nlm.nih.gov/pubmed/25956761 |
| Accurate and fast multiple-testing correction in eQTL studies. |
Sul JH, Raj T, de Jong S, de Bakker PI, Raychaudhuri S, Ophoff RA, Stranger BE, Eskin E, Han B |
American journal of human genetics |
26027500 |
Am J Hum Genet |
2015 Jun 4 |
https://www.ncbi.nlm.nih.gov/pubmed/26027500 |
| A Riemannian Framework for Intrinsic Comparison of Closed Genus-Zero Shapes. |
Gutman BA, Fletcher PT, Cardoso MJ, Fleishman GM, Lorenzi M, Thompson PM, Ourselin S |
Information processing in medical imaging : proceedings of the ... conference |
26221675 |
Inf Process Med Imaging |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26221675 |
| Cerebral Amyloid and Hypertension are Independently Associated with White Matter Lesions in Elderly. |
Scott JA, Braskie MN, Tosun D, Thompson PM, Weiner M, DeCarli C, Carmichael OT, Alzheimer’s Disease Neuroimaging Initiative |
Frontiers in aging neuroscience |
26648866 |
Front Aging Neurosci |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26648866 |
| Heritability and genetic correlation between the cerebral cortex and associated white matter connections. |
Shen KK, Doré V, Rose S, Fripp J, McMahon KL, de Zubicaray GI, Martin NG, Thompson PM, Wright MJ, Salvado O |
Human brain mapping |
27006297 |
Hum Brain Mapp |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/27006297 |
| Early developmental gene enhancers affect subcortical volumes in the adult human brain. |
Becker M, Guadalupe T, Franke B, Hibar DP, Renteria ME, Stein JL, Thompson PM, Francks C, Vernes SC, Fisher SE |
Human brain mapping |
26890892 |
Hum Brain Mapp |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/26890892 |
| Response to Dr Fried & Dr Kievit, and Dr Malhi et al. |
Schmaal L, Veltman DJ, van Erp TG, Sämann PG, Frodl T, Jahanshad N, Loehrer E, Vernooij MW, Niessen WJ, Ikram MA, Wittfeld K, Grabe HJ, Block A, Hegenscheid K, Hoehn D, Czisch M, Lagopoulos J, Hatton SN, Hickie IB, Goya-Maldonado R, Krämer B, Gruber O, Couvy-Duchesne B, Rentería ME, Strike LT, Wright MJ, de Zubicaray GI, McMahon KL, Medland SE, Gillespie NA, Hall GB, van Velzen LS, van Tol MJ, van der Wee NJ, Veer IM, Walter H, Schramm E, Normann C, Schoepf D, Konrad C, Zurowski B, McIntosh AM, Whalley HC, Sussmann JE, Godlewska BR, Fischer FH, Penninx BW, Thompson PM, Hibar DP |
Molecular psychiatry |
26903270 |
Mol Psychiatry |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26903270 |
| An advanced white matter tract analysis in frontotemporal dementia and early-onset Alzheimer's disease. |
Daianu M, Mendez MF, Baboyan VG, Jin Y, Melrose RJ, Jimenez EE, Thompson PM |
Brain imaging and behavior |
26515192 |
Brain Imaging Behav |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/26515192 |
| AUTOMATED MULTI-ATLAS LABELING OF THE FORNIX AND ITS INTEGRITY IN ALZHEIMER'S DISEASE. |
Jin Y, Shi Y, Zhan L, Thompson PM, Alzheimer’s Disease Neuroimaging Initiative (ADNI) |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413203 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413203 |
| SPECTRAL GRAPH THEORY AND GRAPH ENERGY METRICS SHOW EVIDENCE FOR THE ALZHEIMER'S DISEASE DISCONNECTION SYNDROME IN APOE-4 RISK GENE CARRIERS. |
Daianu M, Mezher A, Jahanshad N, Hibar DP, Nir TM, Jack CR Jr, Weiner MW, Bernstein MA, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
26413205 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26413205 |
| Cognitive heterogeneity in adult attention deficit/hyperactivity disorder: A systematic analysis of neuropsychological measurements. |
Mostert JC, Onnink AMH, Klein M, Dammers J, Harneit A, Schulten T, van Hulzen KJE, Kan CC, Slaats-Willemse D, Buitelaar JK, Franke B, Hoogman M |
European neuropsychopharmacology : the journal of the European College of Neuropsychopharmacology |
26336867 |
Eur Neuropsychopharmacol |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26336867 |
| Rich club analysis in the Alzheimer's disease connectome reveals a relatively undisturbed structural core network. |
Daianu M, Jahanshad N, Nir TM, Jack CR Jr, Weiner MW, Bernstein MA, Thompson PM, Alzheimer's Disease Neuroimaging Initiative |
Human brain mapping |
26037224 |
Hum Brain Mapp |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26037224 |
| Cortisol Reactivity to Stress and Its Association With White Matter Integrity in Adults With Schizophrenia. |
Nugent KL, Chiappelli J, Sampath H, Rowland LM, Thangavelu K, Davis B, Du X, Muellerklein F, Daughters S, Kochunov P, Hong LE |
Psychosomatic medicine |
26186431 |
Psychosom Med |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26186431 |
| Identification of causal genes for complex traits. |
Hormozdiari F, Kichaev G, Yang WY, Pasaniuc B, Eskin E |
Bioinformatics (Oxford, England) |
26072484 |
Bioinformatics |
2015 Jun 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26072484 |
| Edge-Centered DTI Connectivity Analysis: Application to Schizophrenia. |
Herskovits EH, Hong LE, Kochunov P, Sampath H, Chen R |
Neuroinformatics |
26078102 |
Neuroinformatics |
2015 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/26078102 |
| Brain Imaging and Neurodevelopment in HIV-uninfected Thai Children Born to HIV-infected Mothers. |
Jahanshad N, Couture MC, Prasitsuebsai W, Nir TM, Aurpibul L, Thompson PM, Pruksakaew K, Lerdlum S, Visrutaratna P, Catella S, Desai A, Kerr SJ, Puthanakit T, Paul R, Ananworanich J, Valcour VG, SEARCH 012 and PREDICT Study Groups |
The Pediatric infectious disease journal |
26090574 |
Pediatr Infect Dis J |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26090574 |
| Boosting brain connectome classification accuracy in Alzheimer's disease using higher-order singular value decomposition. |
Zhan L, Liu Y, Wang Y, Zhou J, Jahanshad N, Ye J, Thompson PM, Alzheimer's Disease Neuroimaging Initiative (ADNI) |
Frontiers in neuroscience |
26257601 |
Front Neurosci |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26257601 |
| Optimal mass transport for shape matching and comparison. |
Su Z, Wang Y, Shi R, Zeng W, Sun J, Luo F, Gu X |
IEEE transactions on pattern analysis and machine intelligence |
26440265 |
IEEE Trans Pattern Anal Mach Intell |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26440265 |
| Tensor-Based Morphometry Reveals Volumetric Deficits in Moderate=Severe Pediatric Traumatic Brain Injury. |
Dennis EL, Hua X, Villalon-Reina J, Moran LM, Kernan C, Babikian T, Mink R, Babbitt C, Johnson J, Giza CC, Thompson PM, Asarnow RF |
Journal of neurotrauma |
26393494 |
J Neurotrauma |
2016 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26393494 |
| Entorhinal Cortex Thickness across the Human Lifespan. |
Hasan KM, Mwangi B, Cao B, Keser Z, Tustison NJ, Kochunov P, Frye RE, Savatic M, Soares J |
Journal of neuroimaging : official journal of the American Society of Neuroimaging |
26565394 |
J Neuroimaging |
2016 May |
https://www.ncbi.nlm.nih.gov/pubmed/26565394 |
| Association of Protein Phosphatase PPM1G With Alcohol Use Disorder and Brain Activity During Behavioral Control in a Genome-Wide Methylation Analysis. |
Ruggeri B, Nymberg C, Vuoksimaa E, Lourdusamy A, Wong CP, Carvalho FM, Jia T, Cattrell A, Macare C, Banaschewski T, Barker GJ, Bokde AL, Bromberg U, Büchel C, Conrod PJ, Fauth-Bühler M, Flor H, Frouin V, Gallinat J, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Nees F, Pausova Z, Paus T, Rietschel M, Robbins T, Smolka MN, Spanagel R, Bakalkin G, Mill J, Sommer WH, Rose RJ, Yan J, Aliev F, Dick D, Kaprio J, Desrivières S, Schumann G, IMAGEN Consortium |
The American journal of psychiatry |
25982659 |
Am J Psychiatry |
2015 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/25982659 |
| Magnetic resonance imaging does not reveal structural alterations in the brain of grapheme-color synesthetes. |
Dojat M, Pizzagalli F, Hupé JM |
PloS one |
29617401 |
PLoS One |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29617401 |
| Magnetic resonance spectroscopy of fiber tracts in children with traumatic brain injury: A combined MRS - Diffusion MRI study. |
Dennis EL, Babikian T, Alger J, Rashid F, Villalon-Reina JE, Jin Y, Olsen A, Mink R, Babbitt C, Johnson J, Giza CC, Thompson PM, Asarnow RF |
Human brain mapping |
29749094 |
Hum Brain Mapp |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/29749094 |
| Altered connectivity patterns among resting state networks in patients with ischemic white matter lesions. |
Ding JR, Ding X, Hua B, Xiong X, Wen Y, Ding Z, Wang Q, Thompson P |
Brain imaging and behavior |
29134612 |
Brain Imaging Behav |
2018 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/29134612 |
| Neuroimaging genomics in psychiatry-a translational approach. |
Mufford MS, Stein DJ, Dalvie S, Groenewold NA, Thompson PM, Jahanshad N |
Genome medicine |
29179742 |
Genome Med |
2017 Nov 27 |
https://www.ncbi.nlm.nih.gov/pubmed/29179742 |
| Preterm birth leads to hyper-reactive cognitive control processing and poor white matter organization in adulthood. |
Olsen A, Dennis EL, Evensen KAI, Husby Hollund IM, Løhaugen GCC, Thompson PM, Brubakk AM, Eikenes L, Håberg AK |
NeuroImage |
29191480 |
Neuroimage |
2018 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/29191480 |
| A COMPARISON OF NETWORK DEFINITIONS FOR DETECTING SEX DIFFERENCES IN BRAIN CONNECTIVITY USING SUPPORT VECTOR MACHINES. |
Hafzalla GW, Ragothaman A, Faskowitz J, Jahanshad N, McMahon KL, de Zubicaray GI, Wright MJ, Braskie MN, Prasad G, Thompson PM |
Proceedings. IEEE International Symposium on Biomedical Imaging |
29201283 |
Proc IEEE Int Symp Biomed Imaging |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29201283 |
| Cortical and Subcortical Brain Morphometry Differences Between Patients With Autism Spectrum Disorder and Healthy Individuals Across the Lifespan: Results From the ENIGMA ASD Working Group. |
van Rooij D, Anagnostou E, Arango C, Auzias G, Behrmann M, Busatto GF, Calderoni S, Daly E, Deruelle C, Di Martino A, Dinstein I, Duran FLS, Durston S, Ecker C, Fair D, Fedor J, Fitzgerald J, Freitag CM, Gallagher L, Gori I, Haar S, Hoekstra L, Jahanshad N, Jalbrzikowski M, Janssen J, Lerch J, Luna B, Martinho MM, McGrath J, Muratori F, Murphy CM, Murphy DGM, O'Hearn K, Oranje B, Parellada M, Retico A, Rosa P, Rubia K, Shook D, Taylor M, Thompson PM, Tosetti M, Wallace GL, Zhou F, Buitelaar JK |
The American journal of psychiatry |
29145754 |
Am J Psychiatry |
2018 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29145754 |
| Asymmetric and Symmetric Unbiased Image Registration: Statistical Assessment of Performance. |
Yanovsky I, Thompson PM, Osher S, Leow AD |
Conference on Computer Vision and Pattern Recognition Workshops. IEEE Computer Society Conference on Computer Vision and Pattern Recognition. Workshops |
29152411 |
Conf Comput Vis Pattern Recognit Workshops |
2008 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29152411 |
| Lingual Gyrus Surface Area Is Associated with Anxiety-Depression Severity in Young Adults: A Genetic Clustering Approach. |
Couvy-Duchesne B, Strike LT, de Zubicaray GI, McMahon KL, Thompson PM, Hickie IB, Martin NG, Wright MJ |
eNeuro |
29354681 |
eNeuro |
2018 Jan-Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29354681 |
| Interaction between striatal volume and DAT1 polymorphism predicts working memory development during adolescence. |
Nemmi F, Nymberg C, Darki F, Banaschewski T, Bokde ALW, Büchel C, Flor H, Frouin V, Garavan H, Gowland P, Heinz A, Martinot JL, Nees F, Paus T, Smolka MN, Robbins TW, Schumann G, Klingberg T, IMAGEN consortium |
Developmental cognitive neuroscience |
29567584 |
Dev Cogn Neurosci |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29567584 |
| Individual differences in stop-related activity are inflated by the adaptive algorithm in the stop signal task. |
D'Alberto N, Chaarani B, Orr CA, Spechler PA, Albaugh MD, Allgaier N, Wonnell A, Banaschewski T, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Conrod PJ, Desrivières S, Flor H, Fröhner JH, Frouin V, Gowland P, Heinz A, Itterman B, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Papadopoulos Orfanos D, Poustka L, Robbins TW, Smolka MN, Walter H, Whelan R, Schumann G, Potter AS, Garavan H |
Human brain mapping |
29656430 |
Hum Brain Mapp |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29656430 |
| Multimodal neuroimaging of male and female brain structure in health and disease across the life span. |
Jahanshad N, Thompson PM |
Journal of neuroscience research |
27870421 |
J Neurosci Res |
2017 Jan 2 |
https://www.ncbi.nlm.nih.gov/pubmed/27870421 |
| Distinct Subcortical Volume Alterations in Pediatric and Adult OCD: A Worldwide Meta- and Mega-Analysis. |
Boedhoe PS, Schmaal L, Abe Y, Ameis SH, Arnold PD, Batistuzzo MC, Benedetti F, Beucke JC, Bollettini I, Bose A, Brem S, Calvo A, Cheng Y, Cho KI, Dallaspezia S, Denys D, Fitzgerald KD, Fouche JP, Giménez M, Gruner P, Hanna GL, Hibar DP, Hoexter MQ, Hu H, Huyser C, Ikari K, Jahanshad N, Kathmann N, Kaufmann C, Koch K, Kwon JS, Lazaro L, Liu Y, Lochner C, Marsh R, Martínez-Zalacaín I, Mataix-Cols D, Menchón JM, Minuzzi L, Nakamae T, Nakao T, Narayanaswamy JC, Piras F, Piras F, Pittenger C, Reddy YC, Sato JR, Simpson HB, Soreni N, Soriano-Mas C, Spalletta G, Stevens MC, Szeszko PR, Tolin DF, Venkatasubramanian G, Walitza S, Wang Z, van Wingen GA, Xu J, Xu X, Yun JY, Zhao Q, ENIGMA OCD Working Group, Thompson PM, Stein DJ, van den Heuvel OA |
The American journal of psychiatry |
27609241 |
Am J Psychiatry |
2017 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27609241 |
| Quantitative magnetic resonance imaging traits as endophenotypes for genetic mapping in epilepsy. |
Alhusaini S, Whelan CD, Sisodiya SM, Thompson PM |
NeuroImage. Clinical |
27672556 |
Neuroimage Clin |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27672556 |
| Cortical abnormalities in adults and adolescents with major depression based on brain scans from 20 cohorts worldwide in the ENIGMA Major Depressive Disorder Working Group. |
Schmaal L, Hibar DP, Sämann PG, Hall GB, Baune BT, Jahanshad N, Cheung JW, van Erp TGM, Bos D, Ikram MA, Vernooij MW, Niessen WJ, Tiemeier H, Hofman A, Wittfeld K, Grabe HJ, Janowitz D, Bülow R, Selonke M, Völzke H, Grotegerd D, Dannlowski U, Arolt V, Opel N, Heindel W, Kugel H, Hoehn D, Czisch M, Couvy-Duchesne B, Rentería ME, Strike LT, Wright MJ, Mills NT, de Zubicaray GI, McMahon KL, Medland SE, Martin NG, Gillespie NA, Goya-Maldonado R, Gruber O, Krämer B, Hatton SN, Lagopoulos J, Hickie IB, Frodl T, Carballedo A, Frey EM, van Velzen LS, Penninx BWJH, van Tol MJ, van der Wee NJ, Davey CG, Harrison BJ, Mwangi B, Cao B, Soares JC, Veer IM, Walter H, Schoepf D, Zurowski B, Konrad C, Schramm E, Normann C, Schnell K, Sacchet MD, Gotlib IH, MacQueen GM, Godlewska BR, Nickson T, McIntosh AM, Papmeyer M, Whalley HC, Hall J, Sussmann JE, Li M, Walter M, Aftanas L, Brack I, Bokhan NA, Thompson PM, Veltman DJ |
Molecular psychiatry |
27137745 |
Mol Psychiatry |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/27137745 |
| Testing differential susceptibility: Plasticity genes, the social environment, and their interplay in adolescent response inhibition. |
Richards JS, Arias Vásquez A, van Rooij D, van der Meer D, Franke B, Hoekstra PJ, Heslenfeld DJ, Oosterlaan J, Faraone SV, Hartman CA, Buitelaar JK |
The world journal of biological psychiatry : the official journal of the World Federation of Societies of Biological Psychiatry |
27170266 |
World J Biol Psychiatry |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/27170266 |
| A comprehensive tractography study of patients with bipolar disorder and their unaffected siblings. |
Sprooten E, Barrett J, McKay DR, Knowles EE, Mathias SR, Winkler AM, Brumbaugh MS, Landau S, Cyr L, Kochunov P, Glahn DC |
Human brain mapping |
27198848 |
Hum Brain Mapp |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/27198848 |
| Autism spectrum disorder and attention-deficit/hyperactivity disorder in early childhood: A review of unique and shared characteristics and developmental antecedents. |
Visser JC, Rommelse NN, Greven CU, Buitelaar JK |
Neuroscience and biobehavioral reviews |
27026637 |
Neurosci Biobehav Rev |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/27026637 |
| Adolescent behavioral and neural reward sensitivity: a test of the differential susceptibility theory. |
Richards JS, Arias Vásquez A, von Rhein D, van der Meer D, Franke B, Hoekstra PJ, Heslenfeld DJ, Oosterlaan J, Faraone SV, Buitelaar JK, Hartman CA |
Translational psychiatry |
27045841 |
Transl Psychiatry |
2016 Apr 5 |
https://www.ncbi.nlm.nih.gov/pubmed/27045841 |
| Ventral Striatum Connectivity During Reward Anticipation in Adolescent Smokers. |
Jollans L, Zhipeng C, Icke I, Greene C, Kelly C, Banaschewski T, Bokde AL, Bromberg U, Büchel C, Cattrell A, Conrod PJ, Desrivières S, Flor H, Frouin V, Gallinat J, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Artiges E, Nees F, Papadopoulos Orfanos D, Paus T, Smolka MN, Walter H, Schumann G, Whelan R |
Developmental neuropsychology |
27074029 |
Dev Neuropsychol |
2016 Jan-Mar |
https://www.ncbi.nlm.nih.gov/pubmed/27074029 |
| Heterochronicity of white matter development and aging explains regional patient control differences in schizophrenia. |
Kochunov P, Ganjgahi H, Winkler A, Kelly S, Shukla DK, Du X, Jahanshad N, Rowland L, Sampath H, Patel B, O'Donnell P, Xie Z, Paciga SA, Schubert CR, Chen J, Zhang G, Thompson PM, Nichols TE, Hong LE |
Human brain mapping |
27477775 |
Hum Brain Mapp |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27477775 |
| Hyperbolic Space Sparse Coding with Its Application on Prediction of Alzheimer's Disease in Mild Cognitive Impairment. |
Zhang J, Shi J, Stonnington C, Li Q, Gutman BA, Chen K, Reiman EM, Caselli RJ, Thompson PM, Ye J, Wang Y |
Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention |
28066843 |
Med Image Comput Comput Assist Interv |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28066843 |
| Functional connectivity in cortico-subcortical brain networks underlying reward processing in attention-deficit/hyperactivity disorder. |
Oldehinkel M, Beckmann CF, Franke B, Hartman CA, Hoekstra PJ, Oosterlaan J, Heslenfeld D, Buitelaar JK, Mennes M |
NeuroImage. Clinical |
27818941 |
Neuroimage Clin |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27818941 |
| Partitioning heritability analysis reveals a shared genetic basis of brain anatomy and schizophrenia. |
Lee PH, Baker JT, Holmes AJ, Jahanshad N, Ge T, Jung JY, Cruz Y, Manoach DS, Hibar DP, Faskowitz J, McMahon KL, de Zubicaray GI, Martin NG, Wright MJ, Öngür D, Buckner R, Roffman J, Thompson PM, Smoller JW |
Molecular psychiatry |
27725656 |
Mol Psychiatry |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27725656 |
| 3D tract-specific local and global analysis of white matter integrity in Alzheimer's disease. |
Jin Y, Huang C, Daianu M, Zhan L, Dennis EL, Reid RI, Jack CR Jr, Zhu H, Thompson PM, Alzheimer's Disease Neuroimaging Initiative |
Human brain mapping |
27883250 |
Hum Brain Mapp |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/27883250 |
| Conformal invariants for multiply connected surfaces: Application to landmark curve-based brain morphometry analysis. |
Shi J, Zhang W, Tang M, Caselli RJ, Wang Y |
Medical image analysis |
27639215 |
Med Image Anal |
2017 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/27639215 |
| Generalized reduced rank latent factor regression for high dimensional tensor fields, and neuroimaging-genetic applications. |
Tao C, Nichols TE, Hua X, Ching CRK, Rolls ET, Thompson PM, Feng J, Alzheimer's Disease Neuroimaging Initiative |
NeuroImage |
27666385 |
Neuroimage |
2017 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/27666385 |
| APPLYING SPARSE CODING TO SURFACE MULTIVARIATE TENSOR-BASED MORPHOMETRY TO PREDICT FUTURE COGNITIVE DECLINE. |
Zhang J, Stonnington C, Li Q, Shi J, Bauer RJ 3rd, Gutman BA, Chen K, Reiman EM, Thompson PM, Ye J, Wang Y |
Proceedings. IEEE International Symposium on Biomedical Imaging |
27499829 |
Proc IEEE Int Symp Biomed Imaging |
2016 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/27499829 |
| Imaging genetics in neurodevelopmental psychopathology. |
Klein M, van Donkelaar M, Verhoef E, Franke B |
American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics |
29984470 |
Am J Med Genet B Neuropsychiatr Genet |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29984470 |
| Distinct brain structure and behavior related to ADHD and conduct disorder traits. |
Bayard F, Nymberg Thunell C, Abé C, Almeida R, Banaschewski T, Barker G, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Desrivières S, Flor H, Frouin V, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Nees F, Orfanos DP, Paus T, Poustka L, Conrod P, Stringaris A, Struve M, Penttilä J, Kappel V, Grimmer Y, Fadai T, van Noort B, Smolka MN, Vetter NC, Walter H, Whelan R, Schumann G, Petrovic P, IMAGEN Consortium |
Molecular psychiatry |
30108313 |
Mol Psychiatry |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30108313 |
| Comparison of heritability estimates on resting state fMRI connectivity phenotypes using the ENIGMA analysis pipeline. |
Adhikari BM, Jahanshad N, Shukla D, Glahn DC, Blangero J, Fox PT, Reynolds RC, Cox RW, Fieremans E, Veraart J, Novikov DS, Nichols TE, Hong LE, Thompson PM, Kochunov P |
Human brain mapping |
30052318 |
Hum Brain Mapp |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30052318 |
| Dose response of the 16p11.2 distal copy number variant on intracranial volume and basal ganglia. |
Sønderby IE, Gústafsson Ó, Doan NT, Hibar DP, Martin-Brevet S, Abdellaoui A, Ames D, Amunts K, Andersson M, Armstrong NJ, Bernard M, Blackburn N, Blangero J, Boomsma DI, Bralten J, Brattbak HR, Brodaty H, Brouwer RM, Bülow R, Calhoun V, Caspers S, Cavalleri G, Chen CH, Cichon S, Ciufolini S, Corvin A, Crespo-Facorro B, Curran JE, Dale AM, Dalvie S, Dazzan P, de Geus EJC, de Zubicaray GI, de Zwarte SMC, Delanty N, den Braber A, Desrivières S, Donohoe G, Draganski B, Ehrlich S, Espeseth T, Fisher SE, Franke B, Frouin V, Fukunaga M, Gareau T, Glahn DC, Grabe H, Groenewold NA, Haavik J, Håberg A, Hashimoto R, Hehir-Kwa JY, Heinz A, Hillegers MHJ, Hoffmann P, Holleran L, Hottenga JJ, Hulshoff HE, Ikeda M, Jahanshad N, Jernigan T, Jockwitz C, Johansson S, Jonsdottir GA, Jönsson EG, Kahn R, Kaufmann T, Kelly S, Kikuchi M, Knowles EEM, Kolskår KK, Kwok JB, Hellard SL, Leu C, Liu J, Lundervold AJ, Lundervold A, Martin NG, Mather K, Mathias SR, McCormack M, McMahon KL, McRae A, Milaneschi Y, Moreau C, Morris D, Mothersill D, Mühleisen TW, Murray R, Nordvik JE, Nyberg L, Olde Loohuis LM, Ophoff R, Paus T, Pausova Z, Penninx B, Peralta JM, Pike B, Prieto C, Pudas S, Quinlan E, Quintana DS, Reinbold CS, Marques TR, Reymond A, Richard G, Rodriguez-Herreros B, Roiz-Santiañez R, Rokicki J, Rucker J, Sachdev P, Sanders AM, Sando SB, Schmaal L, Schofield PR, Schork AJ, Schumann G, Shin J, Shumskaya E, Sisodiya S, Steen VM, Stein DJ, Steinberg S, Strike L, Teumer A, Thalamuthu A, Tordesillas-Gutierrez D, Turner J, Ueland T, Uhlmann A, Ulfarsson MO, van 't Ent D, van der Meer D, van Haren NEM, Vaskinn A, Vassos E, Walters GB, Wang Y, Wen W, Whelan CD, Wittfeld K, Wright M, Yamamori H, Zayats T, Agartz I, Westlye LT, Jacquemont S, Djurovic S, Stefánsson H, Stefánsson K, Thompson P, Andreassen OA, 16p11.2 European Consortium, for the ENIGMA-CNV working group |
Molecular psychiatry |
30283035 |
Mol Psychiatry |
2020 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30283035 |
| Mapping the Heterogeneous Phenotype of Schizophrenia and Bipolar Disorder Using Normative Models. |
Wolfers T, Doan NT, Kaufmann T, Alnæs D, Moberget T, Agartz I, Buitelaar JK, Ueland T, Melle I, Franke B, Andreassen OA, Beckmann CF, Westlye LT, Marquand AF |
JAMA psychiatry |
30304337 |
JAMA Psychiatry |
2018 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30304337 |
| Allele-Specific Methylation of SPDEF: A Novel Moderator of Psychosocial Stress and Substance Abuse. |
Tay N, Macare C, Liu Y, Ruggeri B, Jia T, Chu C, Biondo F, Ing A, Luo Q, Sarkysian D, Banaschewski T, Barker GJ, Bokde ALW, Bromberg U, Büchel C, Quinlan EB, Desrivières S, Flor H, Frouin V, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Artiges E, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Frieling H, Bleich S, Barker ED, Syvänen AC, Rüegg J, Ekström TJ, Bakalkin G, Schumann G, IMAGEN Consortium |
The American journal of psychiatry |
30525907 |
Am J Psychiatry |
2019 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30525907 |
| Comparing fully automated state-of-the-art cerebellum parcellation from magnetic resonance images. |
Carass A, Cuzzocreo JL, Han S, Hernandez-Castillo CR, Rasser PE, Ganz M, Beliveau V, Dolz J, Ben Ayed I, Desrosiers C, Thyreau B, Romero JE, Coupé P, Manjón JV, Fonov VS, Collins DL, Ying SH, Onyike CU, Crocetti D, Landman BA, Mostofsky SH, Thompson PM, Prince JL |
NeuroImage |
30099076 |
Neuroimage |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30099076 |
| Neural correlates of cognitive function and symptoms in attention-deficit/hyperactivity disorder in adults. |
Duan K, Chen J, Calhoun VD, Lin D, Jiang W, Franke B, Buitelaar JK, Hoogman M, Arias-Vasquez A, Turner JA, Liu J |
NeuroImage. Clinical |
30013920 |
Neuroimage Clin |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30013920 |
| Towards Automatic Generation of Portions of Scientific Papers for Large Multi-Institutional Collaborations Based on Semantic Metadata. |
Jang M, Patted T, Gil Y, Garijo D, Ratnakar V, Ji J, Wang P, McMahon A, Thompson PM, Jahanshad N |
CEUR workshop proceedings. |
30034319 |
CEUR Workshop Proc |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/30034319 |
| Using structural MRI to identify bipolar disorders - 13 site machine learning study in 3020 individuals from the ENIGMA Bipolar Disorders Working Group. |
Nunes A, Schnack HG, Ching CRK, Agartz I, Akudjedu TN, Alda M, Alnæs D, Alonso-Lana S, Bauer J, Baune BT, Bøen E, Bonnin CDM, Busatto GF, Canales-Rodríguez EJ, Cannon DM, Caseras X, Chaim-Avancini TM, Dannlowski U, Díaz-Zuluaga AM, Dietsche B, Doan NT, Duchesnay E, Elvsåshagen T, Emden D, Eyler LT, Fatjó-Vilas M, Favre P, Foley SF, Fullerton JM, Glahn DC, Goikolea JM, Grotegerd D, Hahn T, Henry C, Hibar DP, Houenou J, Howells FM, Jahanshad N, Kaufmann T, Kenney J, Kircher TTJ, Krug A, Lagerberg TV, Lenroot RK, López-Jaramillo C, Machado-Vieira R, Malt UF, McDonald C, Mitchell PB, Mwangi B, Nabulsi L, Opel N, Overs BJ, Pineda-Zapata JA, Pomarol-Clotet E, Redlich R, Roberts G, Rosa PG, Salvador R, Satterthwaite TD, Soares JC, Stein DJ, Temmingh HS, Trappenberg T, Uhlmann A, van Haren NEM, Vieta E, Westlye LT, Wolf DH, Yüksel D, Zanetti MV, Andreassen OA, Thompson PM, Hajek T, ENIGMA Bipolar Disorders Working Group |
Molecular psychiatry |
30171211 |
Mol Psychiatry |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/30171211 |
| Deep Learning based Classification of FDG-PET Data for Alzheimers Disease Categories. |
Singh S, Srivastava A, Mi L, Caselli RJ, Chen K, Goradia D, Reiman EM, Wang Y |
Proceedings of SPIE--the International Society for Optical Engineering |
29263566 |
Proc SPIE Int Soc Opt Eng |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/29263566 |
| Neural response to working memory demand predicts neurocognitive deficits in HIV. |
Cohen RA, Siegel S, Gullett JM, Porges E, Woods AJ, Huang H, Zhu Y, Tashima K, Ding MZ |
Journal of neurovirology |
29280107 |
J Neurovirol |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29280107 |
| Susceptibility of brain atrophy to TRIB3 in Alzheimer's disease, evidence from functional prioritization in imaging genetics. |
Lorenzi M, Altmann A, Gutman B, Wray S, Arber C, Hibar DP, Jahanshad N, Schott JM, Alexander DC, Thompson PM, Ourselin S, Alzheimer’s Disease Neuroimaging Initiative |
Proceedings of the National Academy of Sciences of the United States of America |
29511103 |
Proc Natl Acad Sci U S A |
2018 Mar 20 |
https://www.ncbi.nlm.nih.gov/pubmed/29511103 |
| 10Kin1day: A Bottom-Up Neuroimaging Initiative. |
van den Heuvel MP, Scholtens LH, van der Burgh HK, Agosta F, Alloza C, Arango C, Auyeung B, Baron-Cohen S, Basaia S, Benders MJNL, Beyer F, Booij L, Braun KPJ, Filho GB, Cahn W, Cannon DM, Chaim-Avancini TM, Chan SSM, Chen EYH, Crespo-Facorro B, Crone EA, Dannlowski U, de Zwarte SMC, Dietsche B, Donohoe G, Plessis SD, Durston S, Díaz-Caneja CM, Díaz-Zuluaga AM, Emsley R, Filippi M, Frodl T, Gorges M, Graff B, Grotegerd D, Gąsecki D, Hall JM, Holleran L, Holt R, Hopman HJ, Jansen A, Janssen J, Jodzio K, Jäncke L, Kaleda VG, Kassubek J, Masouleh SK, Kircher T, Koevoets MGJC, Kostic VS, Krug A, Lawrie SM, Lebedeva IS, Lee EHM, Lett TA, Lewis SJG, Liem F, Lombardo MV, Lopez-Jaramillo C, Margulies DS, Markett S, Marques P, Martínez-Zalacaín I, McDonald C, McIntosh AM, McPhilemy G, Meinert SL, Menchón JM, Montag C, Moreira PS, Morgado P, Mothersill DO, Mérillat S, Müller HP, Nabulsi L, Najt P, Narkiewicz K, Naumczyk P, Oranje B, Ortiz-Garcia de la Foz V, Peper JS, Pineda JA, Rasser PE, Redlich R, Repple J, Reuter M, Rosa PGP, Ruigrok ANV, Sabisz A, Schall U, Seedat S, Serpa MH, Skouras S, Soriano-Mas C, Sousa N, Szurowska E, Tomyshev AS, Tordesillas-Gutierrez D, Valk SL, van den Berg LH, van Erp TGM, van Haren NEM, van Leeuwen JMC, Villringer A, Vinkers CH, Vollmar C, Waller L, Walter H, Whalley HC, Witkowska M, Witte AV, Zanetti MV, Zhang R, de Lange SC |
Frontiers in neurology |
31133958 |
Front Neurol |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31133958 |
| The Relationship Between White Matter Microstructure and General Cognitive Ability in Patients With Schizophrenia and Healthy Participants in the ENIGMA Consortium. |
Holleran L, Kelly S, Alloza C, Agartz I, Andreassen OA, Arango C, Banaj N, Calhoun V, Cannon D, Carr V, Corvin A, Glahn DC, Gur R, Hong E, Hoschl C, Howells FM, James A, Janssen J, Kochunov P, Lawrie SM, Liu J, Martinez C, McDonald C, Morris D, Mothersill D, Pantelis C, Piras F, Potkin S, Rasser PE, Roalf D, Rowland L, Satterthwaite T, Schall U, Spalletta G, Spaniel F, Stein DJ, Uhlmann A, Voineskos A, Zalesky A, van Erp TGM, Turner JA, Deary IJ, Thompson PM, Jahanshad N, Donohoe G |
The American journal of psychiatry |
32212855 |
Am J Psychiatry |
2020 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32212855 |
| Irritability and brain volume in adolescents: cross-sectional and longitudinal associations. |
Dennis EL, Humphreys KL, King LS, Thompson PM, Gotlib IH |
Social cognitive and affective neuroscience |
31309969 |
Soc Cogn Affect Neurosci |
2019 Jul 31 |
https://www.ncbi.nlm.nih.gov/pubmed/31309969 |
| Genome-wide association analysis of hippocampal volume identifies enrichment of neurogenesis-related pathways. |
Horgusluoglu-Moloch E, Risacher SL, Crane PK, Hibar D, Thompson PM, Saykin AJ, Nho K, Alzheimer’s Disease Neuroimaging Initiative (ADNI) |
Scientific reports |
31601890 |
Sci Rep |
2019 Oct 10 |
https://www.ncbi.nlm.nih.gov/pubmed/31601890 |
| Brain structural abnormalities in obesity: relation to age, genetic risk, and common psychiatric disorders : Evidence through univariate and multivariate mega-analysis including 6420 participants from the ENIGMA MDD working group. |
Opel N, Thalamuthu A, Milaneschi Y, Grotegerd D, Flint C, Leenings R, Goltermann J, Richter M, Hahn T, Woditsch G, Berger K, Hermesdorf M, McIntosh A, Whalley HC, Harris MA, MacMaster FP, Walter H, Veer IM, Frodl T, Carballedo A, Krug A, Nenadic I, Kircher T, Aleman A, Groenewold NA, Stein DJ, Soares JC, Zunta-Soares GB, Mwangi B, Wu MJ, Walter M, Li M, Harrison BJ, Davey CG, Cullen KR, Klimes-Dougan B, Mueller BA, Sämann PG, Penninx B, Nawijn L, Veltman DJ, Aftanas L, Brak IV, Filimonova EA, Osipov EA, Reneman L, Schrantee A, Grabe HJ, Van der Auwera S, Wittfeld K, Hosten N, Völzke H, Sim K, Gotlib IH, Sacchet MD, Lagopoulos J, Hatton SN, Hickie I, Pozzi E, Thompson PM, Jahanshad N, Schmaal L, Baune BT, Dannlowski U |
Molecular psychiatry |
32467648 |
Mol Psychiatry |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32467648 |
| How do substance use disorders compare to other psychiatric conditions on structural brain abnormalities? A cross-disorder meta-analytic comparison using the ENIGMA consortium findings. |
Navarri X, Afzali MH, Lavoie J, Sinha R, Stein DJ, Momenan R, Veltman DJ, Korucuoglu O, Sjoerds Z, van Holst RJ, Hester R, Orr C, Cousijn J, Yucel M, Lorenzetti V, Wiers R, Jahanshad N, Glahn DC, Thompson PM, Mackey S, Conrod PJ |
Human brain mapping |
32643841 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32643841 |
| Region-specific sex differences in the hippocampus. |
van Eijk L, Hansell NK, Strike LT, Couvy-Duchesne B, de Zubicaray GI, Thompson PM, McMahon KL, Zietsch BP, Wright MJ |
NeuroImage |
32278894 |
Neuroimage |
2020 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/32278894 |
| Subcortical Brain Volume, Regional Cortical Thickness, and Cortical Surface Area Across Disorders: Findings From the ENIGMA ADHD, ASD, and OCD Working Groups. |
Boedhoe PSW, van Rooij D, Hoogman M, Twisk JWR, Schmaal L, Abe Y, Alonso P, Ameis SH, Anikin A, Anticevic A, Arango C, Arnold PD, Asherson P, Assogna F, Auzias G, Banaschewski T, Baranov A, Batistuzzo MC, Baumeister S, Baur-Streubel R, Behrmann M, Bellgrove MA, Benedetti F, Beucke JC, Biederman J, Bollettini I, Bose A, Bralten J, Bramati IE, Brandeis D, Brem S, Brennan BP, Busatto GF, Calderoni S, Calvo A, Calvo R, Castellanos FX, Cercignani M, Chaim-Avancini TM, Chantiluke KC, Cheng Y, Cho KIK, Christakou A, Coghill D, Conzelmann A, Cubillo AI, Dale AM, Dallaspezia S, Daly E, Denys D, Deruelle C, Di Martino A, Dinstein I, Doyle AE, Durston S, Earl EA, Ecker C, Ehrlich S, Ely BA, Epstein JN, Ethofer T, Fair DA, Fallgatter AJ, Faraone SV, Fedor J, Feng X, Feusner JD, Fitzgerald J, Fitzgerald KD, Fouche JP, Freitag CM, Fridgeirsson EA, Frodl T, Gabel MC, Gallagher L, Gogberashvili T, Gori I, Gruner P, Gürsel DA, Haar S, Haavik J, Hall GB, Harrison NA, Hartman CA, Heslenfeld DJ, Hirano Y, Hoekstra PJ, Hoexter MQ, Hohmann S, Høvik MF, Hu H, Huyser C, Jahanshad N, Jalbrzikowski M, James A, Janssen J, Jaspers-Fayer F, Jernigan TL, Kapilushniy D, Kardatzki B, Karkashadze G, Kathmann N, Kaufmann C, Kelly C, Khadka S, King JA, Koch K, Kohls G, Konrad K, Kuno M, Kuntsi J, Kvale G, Kwon JS, Lázaro L, Lera-Miguel S, Lesch KP, Hoekstra L, Liu Y, Lochner C, Louza MR, Luna B, Lundervold AJ, Malpas CB, Marques P, Marsh R, Martínez-Zalacaín I, Mataix-Cols D, Mattos P, McCarthy H, McGrath J, Mehta MA, Menchón JM, Mennes M, Martinho MM, Moreira PS, Morer A, Morgado P, Muratori F, Murphy CM, Murphy DGM, Nakagawa A, Nakamae T, Nakao T, Namazova-Baranova L, Narayanaswamy JC, Nicolau R, Nigg JT, Novotny SE, Nurmi EL, Weiss EO, O'Gorman Tuura RL, O'Hearn K, O'Neill J, Oosterlaan J, Oranje B, Paloyelis Y, Parellada M, Pauli P, Perriello C, Piacentini J, Piras F, Piras F, Plessen KJ, Puig O, Ramos-Quiroga JA, Reddy YCJ, Reif A, Reneman L, Retico A, Rosa PGP, Rubia K, Rus OG, Sakai Y, Schrantee A, Schwarz L, Schweren LJS, Seitz J, Shaw P, Shook D, Silk TJ, Simpson HB, Skokauskas N, Soliva Vila JC, Solovieva A, Soreni N, Soriano-Mas C, Spalletta G, Stern ER, Stevens MC, Stewart SE, Sudre G, Szeszko PR, Tamm L, Taylor MJ, Tolin DF, Tosetti M, Tovar-Moll F, Tsuchiyagaito A, van Erp TGM, van Wingen GA, Vance A, Venkatasubramanian G, Vilarroya O, Vives-Gilabert Y, von Polier GG, Walitza S, Wallace GL, Wang Z, Wolfers T, Yoncheva YN, Yun JY, Zanetti MV, Zhou F, Ziegler GC, Zierhut KC, Zwiers MP, ENIGMA ADHD working group, ENIGMA ASD working group, ENIGMA OCD working group, Thompson PM, Stein DJ, Buitelaar J, Franke B, van den Heuvel OA |
The American journal of psychiatry |
32539527 |
Am J Psychiatry |
2020 Sep 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32539527 |
| The ENIGMA Stroke Recovery Working Group: Big data neuroimaging to study brain-behavior relationships after stroke. |
Liew SL, Zavaliangos-Petropulu A, Jahanshad N, Lang CE, Hayward KS, Lohse KR, Juliano JM, Assogna F, Baugh LA, Bhattacharya AK, Bigjahan B, Borich MR, Boyd LA, Brodtmann A, Buetefisch CM, Byblow WD, Cassidy JM, Conforto AB, Craddock RC, Dimyan MA, Dula AN, Ermer E, Etherton MR, Fercho KA, Gregory CM, Hadidchi S, Holguin JA, Hwang DH, Jung S, Kautz SA, Khlif MS, Khoshab N, Kim B, Kim H, Kuceyeski A, Lotze M, MacIntosh BJ, Margetis JL, Mohamed FB, Piras F, Ramos-Murguialday A, Richard G, Roberts P, Robertson AD, Rondina JM, Rost NS, Sanossian N, Schweighofer N, Seo NJ, Shiroishi MS, Soekadar SR, Spalletta G, Stinear CM, Suri A, Tang WKW, Thielman GT, Vecchio D, Villringer A, Ward NS, Werden E, Westlye LT, Winstein C, Wittenberg GF, Wong KA, Yu C, Cramer SC, Thompson PM |
Human brain mapping |
32310331 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32310331 |
| FKBP5 haplotypes and PTSD modulate the resting-state brain activity in Han Chinese adults who lost their only child. |
Qi R, Luo Y, Zhang L, Weng Y, Surento W, Jahanshad N, Xu Q, Yin Y, Li L, Cao Z, Thompson PM, Lu GM |
Translational psychiatry |
32170058 |
Transl Psychiatry |
2020 Mar 13 |
https://www.ncbi.nlm.nih.gov/pubmed/32170058 |
| Subcortical shape alterations in major depressive disorder: Findings from the ENIGMA major depressive disorder working group. |
Ho TC, Gutman B, Pozzi E, Grabe HJ, Hosten N, Wittfeld K, Völzke H, Baune B, Dannlowski U, Förster K, Grotegerd D, Redlich R, Jansen A, Kircher T, Krug A, Meinert S, Nenadic I, Opel N, Dinga R, Veltman DJ, Schnell K, Veer I, Walter H, Gotlib IH, Sacchet MD, Aleman A, Groenewold NA, Stein DJ, Li M, Walter M, Ching CRK, Jahanshad N, Ragothaman A, Isaev D, Zavaliangos-Petropulu A, Thompson PM, Sämann PG, Schmaal L |
Human brain mapping |
32198905 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/32198905 |
| A Fast Method for Estimating Statistical Power of Multivariate GWAS in Real Case Scenarios: Examples from the Field of Imaging Genetics. |
Couvy-Duchesne B, Strike LT, McMahon KL, de Zubicaray GI, Thompson PM, Martin NG, Medland SE, Wright MJ |
Behavior genetics |
30443694 |
Behav Genet |
2019 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/30443694 |
| Decreased brain connectivity in smoking contrasts with increased connectivity in drinking. |
Cheng W, Rolls ET, Robbins TW, Gong W, Liu Z, Lv W, Du J, Wen H, Ma L, Quinlan EB, Garavan H, Artiges E, Papadopoulos Orfanos D, Smolka MN, Schumann G, Kendrick K, Feng J |
eLife |
30616717 |
Elife |
2019 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/30616717 |
| Pubertal maturation and sex effects on the default-mode network connectivity implicated in mood dysregulation. |
Ernst M, Benson B, Artiges E, Gorka AX, Lemaitre H, Lago T, Miranda R, Banaschewski T, Bokde ALW, Bromberg U, Brühl R, Büchel C, Cattrell A, Conrod P, Desrivières S, Fadai T, Flor H, Grigis A, Gallinat J, Garavan H, Gowland P, Grimmer Y, Heinz A, Kappel V, Nees F, Papadopoulos-Orfanos D, Penttilä J, Poustka L, Smolka MN, Stringaris A, Struve M, van Noort BM, Walter H, Whelan R, Schumann G, Grillon C, Martinot MP, Martinot JL, IMAGEN Consortium |
Translational psychiatry |
30804326 |
Transl Psychiatry |
2019 Feb 25 |
https://www.ncbi.nlm.nih.gov/pubmed/30804326 |
| Neandertal Introgression Sheds Light on Modern Human Endocranial Globularity. |
Gunz P, Tilot AK, Wittfeld K, Teumer A, Shapland CY, van Erp TGM, Dannemann M, Vernot B, Neubauer S, Guadalupe T, Fernández G, Brunner HG, Enard W, Fallon J, Hosten N, Völker U, Profico A, Di Vincenzo F, Manzi G, Kelso J, St Pourcain B, Hublin JJ, Franke B, Pääbo S, Macciardi F, Grabe HJ, Fisher SE |
Current biology : CB |
30836076 |
Curr Biol |
2019 Mar 4 |
https://www.ncbi.nlm.nih.gov/pubmed/30836076 |
| Effects of ketamine and midazolam on resting state connectivity and comparison with ENIGMA connectivity deficit patterns in schizophrenia. |
Adhikari BM, Dukart J, Hipp JF, Forsyth A, McMillan R, Muthukumaraswamy SD, Ryan MC, Hong LE, Eickhoff SB, Jahandshad N, Thompson PM, Rowland LM, Kochunov P |
Human brain mapping |
31633254 |
Hum Brain Mapp |
2020 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/31633254 |
| Epigenome-wide meta-analysis of blood DNA methylation and its association with subcortical volumes: findings from the ENIGMA Epigenetics Working Group. |
Jia T, Chu C, Liu Y, van Dongen J, Papastergios E, Armstrong NJ, Bastin ME, Carrillo-Roa T, den Braber A, Harris M, Jansen R, Liu J, Luciano M, Ori APS, Roiz Santiañez R, Ruggeri B, Sarkisyan D, Shin J, Sungeun K, Tordesillas Gutiérrez D, Van't Ent D, Ames D, Artiges E, Bakalkin G, Banaschewski T, Bokde ALW, Brodaty H, Bromberg U, Brouwer R, Büchel C, Burke Quinlan E, Cahn W, de Zubicaray GI, Ehrlich S, Ekström TJ, Flor H, Fröhner JH, Frouin V, Garavan H, Gowland P, Heinz A, Hoare J, Ittermann B, Jahanshad N, Jiang J, Kwok JB, Martin NG, Martinot JL, Mather KA, McMahon KL, McRae AF, Nees F, Papadopoulos Orfanos D, Paus T, Poustka L, Sämann PG, Schofield PR, Smolka MN, Stein DJ, Strike LT, Teeuw J, Thalamuthu A, Trollor J, Walter H, Wardlaw JM, Wen W, Whelan R, Apostolova LG, Binder EB, Boomsma DI, Calhoun V, Crespo-Facorro B, Deary IJ, Hulshoff Pol H, Ophoff RA, Pausova Z, Sachdev PS, Saykin A, Wright MJ, Thompson PM, Schumann G, Desrivières S |
Molecular psychiatry |
31811260 |
Mol Psychiatry |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31811260 |
| Hierarchical associations of alcohol use disorder symptoms in late adolescence with markers during early adolescence. |
Kühn S, Lisofsky N, Banaschewski T, Barker G, Bokde ALW, Bromberg U, Büchel C, Brühl R, Quinlan EB, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Nees F, Orfanos DP, Paus T, Poustka L, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Gallinat J, IMAGEN Consortium |
Addictive behaviors |
31622946 |
Addict Behav |
2020 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/31622946 |
| Genomic GPS: using genetic distance from individuals to public data for genomic analysis without disclosing personal genomes. |
Kim K, Baik H, Jang CS, Roh JK, Eskin E, Han B |
Genome biology |
31455387 |
Genome Biol |
2019 Aug 27 |
https://www.ncbi.nlm.nih.gov/pubmed/31455387 |
| New alcohol-related genes suggest shared genetic mechanisms with neuropsychiatric disorders. |
Evangelou E, Gao H, Chu C, Ntritsos G, Blakeley P, Butts AR, Pazoki R, Suzuki H, Koskeridis F, Yiorkas AM, Karaman I, Elliott J, Luo Q, Aeschbacher S, Bartz TM, Baumeister SE, Braund PS, Brown MR, Brody JA, Clarke TK, Dimou N, Faul JD, Homuth G, Jackson AU, Kentistou KA, Joshi PK, Lemaitre RN, Lind PA, Lyytikäinen LP, Mangino M, Milaneschi Y, Nelson CP, Nolte IM, Perälä MM, Polasek O, Porteous D, Ratliff SM, Smith JA, Stančáková A, Teumer A, Tuominen S, Thériault S, Vangipurapu J, Whitfield JB, Wood A, Yao J, Yu B, Zhao W, Arking DE, Auvinen J, Liu C, Männikkö M, Risch L, Rotter JI, Snieder H, Veijola J, Blakemore AI, Boehnke M, Campbell H, Conen D, Eriksson JG, Grabe HJ, Guo X, van der Harst P, Hartman CA, Hayward C, Heath AC, Jarvelin MR, Kähönen M, Kardia SLR, Kühne M, Kuusisto J, Laakso M, Lahti J, Lehtimäki T, McIntosh AM, Mohlke KL, Morrison AC, Martin NG, Oldehinkel AJ, Penninx BWJH, Psaty BM, Raitakari OT, Rudan I, Samani NJ, Scott LJ, Spector TD, Verweij N, Weir DR, Wilson JF, Levy D, Tzoulaki I, Bell JD, Matthews PM, Rothenfluh A, Desrivières S, Schumann G, Elliott P |
Nature human behaviour |
31358974 |
Nat Hum Behav |
2019 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/31358974 |
| Greater male than female variability in regional brain structure across the lifespan. |
Wierenga LM, Doucet GE, Dima D, Agartz I, Aghajani M, Akudjedu TN, Albajes-Eizagirre A, Alnaes D, Alpert KI, Andreassen OA, Anticevic A, Asherson P, Banaschewski T, Bargallo N, Baumeister S, Baur-Streubel R, Bertolino A, Bonvino A, Boomsma DI, Borgwardt S, Bourque J, den Braber A, Brandeis D, Breier A, Brodaty H, Brouwer RM, Buitelaar JK, Busatto GF, Calhoun VD, Canales-Rodríguez EJ, Cannon DM, Caseras X, Castellanos FX, Chaim-Avancini TM, Ching CR, Clark VP, Conrod PJ, Conzelmann A, Crivello F, Davey CG, Dickie EW, Ehrlich S, Van't Ent D, Fisher SE, Fouche JP, Franke B, Fuentes-Claramonte P, de Geus EJ, Di Giorgio A, Glahn DC, Gotlib IH, Grabe HJ, Gruber O, Gruner P, Gur RE, Gur RC, Gurholt TP, de Haan L, Haatveit B, Harrison BJ, Hartman CA, Hatton SN, Heslenfeld DJ, van den Heuvel OA, Hickie IB, Hoekstra PJ, Hohmann S, Holmes AJ, Hoogman M, Hosten N, Howells FM, Hulshoff Pol HE, Huyser C, Jahanshad N, James AC, Jiang J, Jönsson EG, Joska JA, Kalnin AJ, Karolinska Schizophrenia Project (KaSP) Consortium, Klein M, Koenders L, Kolskår KK, Krämer B, Kuntsi J, Lagopoulos J, Lazaro L, Lebedeva IS, Lee PH, Lochner C, Machielsen MW, Maingault S, Martin NG, Martínez-Zalacaín I, Mataix-Cols D, Mazoyer B, McDonald BC, McDonald C, McIntosh AM, McMahon KL, McPhilemy G, van der Meer D, Menchón JM, Naaijen J, Nyberg L, Oosterlaan J, Paloyelis Y, Pauli P, Pergola G, Pomarol-Clotet E, Portella MJ, Radua J, Reif A, Richard G, Roffman JL, Rosa PG, Sacchet MD, Sachdev PS, Salvador R, Sarró S, Satterthwaite TD, Saykin AJ, Serpa MH, Sim K, Simmons A, Smoller JW, Sommer IE, Soriano-Mas C, Stein DJ, Strike LT, Szeszko PR, Temmingh HS, Thomopoulos SI, Tomyshev AS, Trollor JN, Uhlmann A, Veer IM, Veltman DJ, Voineskos A, Völzke H, Walter H, Wang L, Wang Y, Weber B, Wen W, West JD, Westlye LT, Whalley HC, Williams SC, Wittfeld K, Wolf DH, Wright MJ, Yoncheva YN, Zanetti MV, Ziegler GC, de Zubicaray GI, Thompson PM, Crone EA, Frangou S, Tamnes CK |
Human brain mapping |
33044802 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33044802 |
| Association of Genetic and Phenotypic Assessments With Onset of Disordered Eating Behaviors and Comorbid Mental Health Problems Among Adolescents. |
Robinson L, Zhang Z, Jia T, Bobou M, Roach A, Campbell I, Irish M, Quinlan EB, Tay N, Barker ED, Banaschewski T, Bokde ALW, Grigis A, Garavan H, Heinz A, Ittermann B, Martinot JL, Stringaris A, Penttilä J, van Noort B, Grimmer Y, Martinot MP, Insensee C, Becker A, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Schmidt U, Desrivières S, IMAGEN Consortium |
JAMA network open |
33263759 |
JAMA Netw Open |
2020 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/33263759 |
| Atlas55+: Brain Functional Atlas of Resting-State Networks for Late Adulthood. |
Doucet GE, Labache L, Thompson PM, Joliot M, Frangou S, Alzheimer’s Disease Neuroimaging Initiative |
Cerebral cortex (New York, N.Y. : 1991) |
33188411 |
Cereb Cortex |
2021 Feb 5 |
https://www.ncbi.nlm.nih.gov/pubmed/33188411 |
| Challenges and opportunities for neuroimaging in young patients with traumatic brain injury: a coordinated effort towards advancing discovery from the ENIGMA pediatric moderate/severe TBI group. |
Dennis EL, Caeyenberghs K, Asarnow RF, Babikian T, Bartnik-Olson B, Bigler ED, Figaji A, Giza CC, Goodrich-Hunsaker NJ, Hodges CB, Hoskinson KR, Königs M, Levin HS, Lindsey HM, Livny A, Max JE, Merkley TL, Newsome MR, Olsen A, Ryan NP, Spruiell MS, Suskauer SJ, Thomopoulos SI, Ware AL, Watson CG, Wheeler AL, Yeates KO, Zielinski BA, Thompson PM, Tate DF, Wilde EA |
Brain imaging and behavior |
32734437 |
Brain Imaging Behav |
2021 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/32734437 |
| In vivo hippocampal subfield volumes in bipolar disorder-A mega-analysis from The Enhancing Neuro Imaging Genetics through Meta-Analysis Bipolar Disorder Working Group. |
Haukvik UK, Gurholt TP, Nerland S, Elvsåshagen T, Akudjedu TN, Alda M, Alnaes D, Alonso-Lana S, Bauer J, Baune BT, Benedetti F, Berk M, Bettella F, Bøen E, Bonnín CM, Brambilla P, Canales-Rodríguez EJ, Cannon DM, Caseras X, Dandash O, Dannlowski U, Delvecchio G, Díaz-Zuluaga AM, van Erp TGM, Fatjó-Vilas M, Foley SF, Förster K, Fullerton JM, Goikolea JM, Grotegerd D, Gruber O, Haarman BCM, Haatveit B, Hajek T, Hallahan B, Harris M, Hawkins EL, Howells FM, Hülsmann C, Jahanshad N, Jørgensen KN, Kircher T, Krämer B, Krug A, Kuplicki R, Lagerberg TV, Lancaster TM, Lenroot RK, Lonning V, López-Jaramillo C, Malt UF, McDonald C, McIntosh AM, McPhilemy G, van der Meer D, Melle I, Melloni EMT, Mitchell PB, Nabulsi L, Nenadić I, Oertel V, Oldani L, Opel N, Otaduy MCG, Overs BJ, Pineda-Zapata JA, Pomarol-Clotet E, Radua J, Rauer L, Redlich R, Repple J, Rive MM, Roberts G, Ruhe HG, Salminen LE, Salvador R, Sarró S, Savitz J, Schene AH, Sim K, Soeiro-de-Souza MG, Stäblein M, Stein DJ, Stein F, Tamnes CK, Temmingh HS, Thomopoulos SI, Veltman DJ, Vieta E, Waltemate L, Westlye LT, Whalley HC, Sämann PG, Thompson PM, Ching CRK, Andreassen OA, Agartz I, ENIGMA Bipolar Disorder Working Group |
Human brain mapping |
33073925 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33073925 |
| Mega-analysis of association between obesity and cortical morphology in bipolar disorders: ENIGMA study in 2832 participants. |
McWhinney SR, Abé C, Alda M, Benedetti F, Bøen E, Del Mar Bonnin C, Borgers T, Brosch K, Canales-Rodríguez EJ, Cannon DM, Dannlowski U, Diaz-Zuluaga AM, Dietze LMF, Elvsåshagen T, Eyler LT, Fullerton JM, Goikolea JM, Goltermann J, Grotegerd D, Haarman BCM, Hahn T, Howells FM, Ingvar M, Jahanshad N, Kircher TTJ, Krug A, Kuplicki RT, Landén M, Lemke H, Liberg B, Lopez-Jaramillo C, Malt UF, Martyn FM, Mazza E, McDonald C, McPhilemy G, Meier S, Meinert S, Meller T, Melloni EMT, Mitchell PB, Nabulsi L, Nenadic I, Opel N, Ophoff RA, Overs BJ, Pfarr JK, Pineda-Zapata JA, Pomarol-Clotet E, Raduà J, Repple J, Richter M, Ringwald KG, Roberts G, Ross A, Salvador R, Savitz J, Schmitt S, Schofield PR, Sim K, Stein DJ, Stein F, Temmingh HS, Thiel K, Thomopoulos SI, van Haren NEM, Vargas C, Vieta E, Vreeker A, Waltemate L, Yatham LN, Ching CRK, Andreassen OA, Thompson PM, Hajek T, ENIGMA Bipolar Disorder Working Group |
Psychological medicine |
36846964 |
Psychol Med |
2023 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/36846964 |
| Author Correction: A shared neural basis underlying psychiatric comorbidity. |
Xie C, Xiang S, Shen C, Peng X, Kang J, Li Y, Cheng W, He S, Bobou M, Broulidakis MJ, van Noort BM, Zhang Z, Robinson L, Vaidya N, Winterer J, Zhang Y, King S, Banaschewski T, Barker GJ, Bokde ALW, Bromberg U, Büchel C, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Ittermann B, Lemaître H, Martinot JL, Martinot MP, Nees F, Orfanos DP, Paus T, Poustka L, Fröhner JH, Schmidt U, Sinclair J, Smolka MN, Stringaris A, Walter H, Whelan R, Desrivières S, Sahakian BJ, Robbins TW, Schumann G, Jia T, Feng J, IMAGEN Consortium, STRATIFY/ESTRA Consortium, ZIB Consortium |
Nature medicine |
37558759 |
Nat Med |
2023 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/37558759 |
| A stable and replicable neural signature of lifespan adversity in the adult brain. |
Holz NE, Zabihi M, Kia SM, Monninger M, Aggensteiner PM, Siehl S, Floris DL, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Orfanos DP, Paus T, Poustka L, Fröhner JH, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Meyer-Lindenberg A, Brandeis D, Buitelaar JK, Nees F, Beckmann C, IMAGEN Consortium, Banaschewski T, Marquand AF |
Nature neuroscience |
37604888 |
Nat Neurosci |
2023 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/37604888 |
| Ensemble classification of autism spectrum disorder using structural magnetic resonance imaging features. |
Zhang-James Y, Buitelaar JK, ENIGMA‐ASD Working Group, van Rooij D, Faraone SV |
JCPP advances |
37431438 |
JCPP Adv |
2021 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/37431438 |
| A systematic review of neuroimaging epigenetic research: calling for an increased focus on development. |
Walton E, Baltramonaityte V, Calhoun V, Heijmans BT, Thompson PM, Cecil CAM |
Molecular psychiatry |
37185958 |
Mol Psychiatry |
2023 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/37185958 |
| Uncontrolled eating and sensation-seeking partially explain the prediction of future binge drinking from adolescent brain structure. |
Rane RP, Musial MPM, Beck A, Rapp M, Schlagenhauf F, Banaschewski T, Bokde ALW, Paillère Martinot ML, Artiges E, Nees F, Lemaitre H, Hohmann S, Schumann G, Walter H, Heinz A, Ritter K, IMAGEN consortium |
NeuroImage. Clinical |
37837892 |
Neuroimage Clin |
2023 |
https://www.ncbi.nlm.nih.gov/pubmed/37837892 |
| Brain Structure and Degeneration Staging in Friedreich Ataxia: Magnetic Resonance Imaging Volumetrics from the ENIGMA-Ataxia Working Group. |
Harding IH, Chopra S, Arrigoni F, Boesch S, Brunetti A, Cocozza S, Corben LA, Deistung A, Delatycki M, Diciotti S, Dogan I, Evangelisti S, França MC Jr, Göricke SL, Georgiou-Karistianis N, Gramegna LL, Henry PG, Hernandez-Castillo CR, Hutter D, Jahanshad N, Joers JM, Lenglet C, Lodi R, Manners DN, Martinez ARM, Martinuzzi A, Marzi C, Mascalchi M, Nachbauer W, Pane C, Peruzzo D, Pisharady PK, Pontillo G, Reetz K, Rezende TJR, Romanzetti S, Saccà F, Scherfler C, Schulz JB, Stefani A, Testa C, Thomopoulos SI, Timmann D, Tirelli S, Tonon C, Vavla M, Egan GF, Thompson PM |
Annals of neurology |
34435700 |
Ann Neurol |
2021 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/34435700 |
| Cortical and subcortical brain structure in generalized anxiety disorder: findings from 28 research sites in the ENIGMA-Anxiety Working Group. |
Harrewijn A, Cardinale EM, Groenewold NA, Bas-Hoogendam JM, Aghajani M, Hilbert K, Cardoner N, Porta-Casteràs D, Gosnell S, Salas R, Jackowski AP, Pan PM, Salum GA, Blair KS, Blair JR, Hammoud MZ, Milad MR, Burkhouse KL, Phan KL, Schroeder HK, Strawn JR, Beesdo-Baum K, Jahanshad N, Thomopoulos SI, Buckner R, Nielsen JA, Smoller JW, Soares JC, Mwangi B, Wu MJ, Zunta-Soares GB, Assaf M, Diefenbach GJ, Brambilla P, Maggioni E, Hofmann D, Straube T, Andreescu C, Berta R, Tamburo E, Price RB, Manfro GG, Agosta F, Canu E, Cividini C, Filippi M, Kostić M, Munjiza Jovanovic A, Alberton BAV, Benson B, Freitag GF, Filippi CA, Gold AL, Leibenluft E, Ringlein GV, Werwath KE, Zwiebel H, Zugman A, Grabe HJ, Van der Auwera S, Wittfeld K, Völzke H, Bülow R, Balderston NL, Ernst M, Grillon C, Mujica-Parodi LR, van Nieuwenhuizen H, Critchley HD, Makovac E, Mancini M, Meeten F, Ottaviani C, Ball TM, Fonzo GA, Paulus MP, Stein MB, Gur RE, Gur RC, Kaczkurkin AN, Larsen B, Satterthwaite TD, Harper J, Myers M, Perino MT, Sylvester CM, Yu Q, Lueken U, Veltman DJ, Thompson PM, Stein DJ, Van der Wee NJA, Winkler AM, Pine DS |
Translational psychiatry |
34599145 |
Transl Psychiatry |
2021 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/34599145 |
| Assessment of brain age in posttraumatic stress disorder: Findings from the ENIGMA PTSD and brain age working groups. |
Clausen AN, Fercho KA, Monsour M, Disner S, Salminen L, Haswell CC, Rubright EC, Watts AA, Buckley MN, Maron-Katz A, Sierk A, Manthey A, Suarez-Jimenez B, Olatunji BO, Averill CL, Hofmann D, Veltman DJ, Olson EA, Li G, Forster GL, Walter H, Fitzgerald J, Théberge J, Simons JS, Bomyea JA, Frijling JL, Krystal JH, Baker JT, Phan KL, Ressler K, Han LKM, Nawijn L, Lebois LAM, Schmaal L, Densmore M, Shenton ME, van Zuiden M, Stein M, Fani N, Simons RM, Neufeld RWJ, Lanius R, van Rooij S, Koch SBJ, Bonomo S, Jovanovic T, deRoon-Cassini T, Ely TD, Magnotta VA, He X, Abdallah CG, Etkin A, Schmahl C, Larson C, Rosso IM, Blackford JU, Stevens JS, Daniels JK, Herzog J, Kaufman ML, Olff M, Davidson RJ, Sponheim SR, Mueller SC, Straube T, Zhu X, Neria Y, Baugh LA, Cole JH, Thompson PM, Morey RA |
Brain and behavior |
34907666 |
Brain Behav |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/34907666 |
| The additive impact of cardio-metabolic disorders and psychiatric illnesses on accelerated brain aging. |
Ryan MC, Hong LE, Hatch KS, Gao S, Chen S, Haerian K, Wang J, Goldwaser EL, Du X, Adhikari BM, Bruce H, Hare S, Kvarta MD, Jahanshad N, Nichols TE, Thompson PM, Kochunov P |
Human brain mapping |
35112422 |
Hum Brain Mapp |
2022 Apr 15 |
https://www.ncbi.nlm.nih.gov/pubmed/35112422 |
| A comparison of methods to harmonize cortical thickness measurements across scanners and sites. |
Sun D, Rakesh G, Haswell CC, Logue M, Baird CL, O'Leary EN, Cotton AS, Xie H, Tamburrino M, Chen T, Dennis EL, Jahanshad N, Salminen LE, Thomopoulos SI, Rashid F, Ching CRK, Koch SBJ, Frijling JL, Nawijn L, van Zuiden M, Zhu X, Suarez-Jimenez B, Sierk A, Walter H, Manthey A, Stevens JS, Fani N, van Rooij SJH, Stein M, Bomyea J, Koerte IK, Choi K, van der Werff SJA, Vermeiren RRJM, Herzog J, Lebois LAM, Baker JT, Olson EA, Straube T, Korgaonkar MS, Andrew E, Zhu Y, Li G, Ipser J, Hudson AR, Peverill M, Sambrook K, Gordon E, Baugh L, Forster G, Simons RM, Simons JS, Magnotta V, Maron-Katz A, du Plessis S, Disner SG, Davenport N, Grupe DW, Nitschke JB, deRoon-Cassini TA, Fitzgerald JM, Krystal JH, Levy I, Olff M, Veltman DJ, Wang L, Neria Y, De Bellis MD, Jovanovic T, Daniels JK, Shenton M, van de Wee NJA, Schmahl C, Kaufman ML, Rosso IM, Sponheim SR, Hofmann DB, Bryant RA, Fercho KA, Stein DJ, Mueller SC, Hosseini B, Phan KL, McLaughlin KA, Davidson RJ, Larson CL, May G, Nelson SM, Abdallah CG, Gomaa H, Etkin A, Seedat S, Harpaz-Rotem I, Liberzon I, van Erp TGM, Quidé Y, Wang X, Thompson PM, Morey RA |
NeuroImage |
35917919 |
Neuroimage |
2022 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/35917919 |
| Longitudinal trajectories of cortical development in 22q11.2 copy number variants and typically developing controls. |
Jalbrzikowski M, Lin A, Vajdi A, Grigoryan V, Kushan L, Ching CRK, Schleifer C, Hayes RA, Chu SA, Sugar CA, Forsyth JK, Bearden CE |
Molecular psychiatry |
35896619 |
Mol Psychiatry |
2022 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/35896619 |
| Cortical and subcortical neuroanatomical signatures of schizotypy in 3004 individuals assessed in a worldwide ENIGMA study. |
Kirschner M, Hodzic-Santor B, Antoniades M, Nenadic I, Kircher T, Krug A, Meller T, Grotegerd D, Fornito A, Arnatkeviciute A, Bellgrove MA, Tiego J, Dannlowski U, Koch K, Hülsmann C, Kugel H, Enneking V, Klug M, Leehr EJ, Böhnlein J, Gruber M, Mehler D, DeRosse P, Moyett A, Baune BT, Green M, Quidé Y, Pantelis C, Chan R, Wang Y, Ettinger U, Debbané M, Derome M, Gaser C, Besteher B, Diederen K, Spencer TJ, Fletcher P, Rössler W, Smigielski L, Kumari V, Premkumar P, Park HRP, Wiebels K, Lemmers-Jansen I, Gilleen J, Allen P, Kozhuharova P, Marsman JB, Lebedeva I, Tomyshev A, Mukhorina A, Kaiser S, Fett AK, Sommer I, Schuite-Koops S, Paquola C, Larivière S, Bernhardt B, Dagher A, Grant P, van Erp TGM, Turner JA, Thompson PM, Aleman A, Modinos G |
Molecular psychiatry |
34707236 |
Mol Psychiatry |
2022 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/34707236 |
| Diagnosis of bipolar disorders and body mass index predict clustering based on similarities in cortical thickness-ENIGMA study in 2436 individuals. |
McWhinney SR, Abé C, Alda M, Benedetti F, Bøen E, Del Mar Bonnin C, Borgers T, Brosch K, Canales-Rodríguez EJ, Cannon DM, Dannlowski U, Diaz-Zuluaga AM, Dietze L, Elvsåshagen T, Eyler LT, Fullerton JM, Goikolea JM, Goltermann J, Grotegerd D, Haarman BCM, Hahn T, Howells FM, Ingvar M, Kircher TTJ, Krug A, Kuplicki RT, Landén M, Lemke H, Liberg B, Lopez-Jaramillo C, Malt UF, Martyn FM, Mazza E, McDonald C, McPhilemy G, Meier S, Meinert S, Meller T, Melloni EMT, Mitchell PB, Nabulsi L, Nenadic I, Opel N, Ophoff RA, Overs BJ, Pfarr JK, Pineda-Zapata JA, Pomarol-Clotet E, Raduà J, Repple J, Richter M, Ringwald KG, Roberts G, Ross A, Salvador R, Savitz J, Schmitt S, Schofield PR, Sim K, Stein DJ, Stein F, Temmingh HS, Thiel K, Thomopoulos SI, van Haren NEM, Van Gestel H, Vargas C, Vieta E, Vreeker A, Waltemate L, Yatham LN, Ching CRK, Andreassen OA, Thompson PM, Hajek T, ENIGMA Bipolar Disorders Working Group |
Bipolar disorders |
34894200 |
Bipolar Disord |
2022 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/34894200 |
| Remodeling of the Cortical Structural Connectome in Posttraumatic Stress Disorder: Results From the ENIGMA-PGC Posttraumatic Stress Disorder Consortium. |
Sun D, Rakesh G, Clarke-Rubright EK, Haswell CC, Logue MW, O'Leary EN, Cotton AS, Xie H, Dennis EL, Jahanshad N, Salminen LE, Thomopoulos SI, Rashid FM, Ching CRK, Koch SBJ, Frijling JL, Nawijn L, van Zuiden M, Zhu X, Suarez-Jimenez B, Sierk A, Walter H, Manthey A, Stevens JS, Fani N, van Rooij SJH, Stein MB, Bomyea J, Koerte I, Choi K, van der Werff SJA, Vermeiren RRJM, Herzog JI, Lebois LAM, Baker JT, Ressler KJ, Olson EA, Straube T, Korgaonkar MS, Andrew E, Zhu Y, Li G, Ipser J, Hudson AR, Peverill M, Sambrook K, Gordon E, Baugh LA, Forster G, Simons RM, Simons JS, Magnotta VA, Maron-Katz A, du Plessis S, Disner SG, Davenport ND, Grupe D, Nitschke JB, deRoon-Cassini TA, Fitzgerald J, Krystal JH, Levy I, Olff M, Veltman DJ, Wang L, Neria Y, De Bellis MD, Jovanovic T, Daniels JK, Shenton ME, van de Wee NJA, Schmahl C, Kaufman ML, Rosso IM, Sponheim SR, Hofmann DB, Bryant RA, Fercho KA, Stein DJ, Mueller SC, Phan KL, McLaughlin KA, Davidson RJ, Larson C, May G, Nelson SM, Abdallah CG, Gomaa H, Etkin A, Seedat S, Harpaz-Rotem I, Liberzon I, Wang X, Thompson PM, Morey RA |
Biological psychiatry. Cognitive neuroscience and neuroimaging |
35307575 |
Biol Psychiatry Cogn Neurosci Neuroimaging |
2022 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/35307575 |
| The thalamus and its subnuclei-a gateway to obsessive-compulsive disorder. |
Weeland CJ, Kasprzak S, de Joode NT, Abe Y, Alonso P, Ameis SH, Anticevic A, Arnold PD, Balachander S, Banaj N, Bargallo N, Batistuzzo MC, Benedetti F, Beucke JC, Bollettini I, Brecke V, Brem S, Cappi C, Cheng Y, Cho KIK, Costa DLC, Dallaspezia S, Denys D, Eng GK, Ferreira S, Feusner JD, Fontaine M, Fouche JP, Grazioplene RG, Gruner P, He M, Hirano Y, Hoexter MQ, Huyser C, Hu H, Jaspers-Fayer F, Kathmann N, Kaufmann C, Kim M, Koch K, Bin Kwak Y, Kwon JS, Lazaro L, Li CR, Lochner C, Marsh R, Martínez-Zalacaín I, Mataix-Cols D, Menchón JM, Minnuzi L, Moreira PS, Morgado P, Nakagawa A, Nakamae T, Narayanaswamy JC, Nurmi EL, Ortiz AE, Pariente JC, Piacentini J, Picó-Pérez M, Piras F, Piras F, Pittenger C, Reddy YCJ, Rodriguez-Manrique D, Sakai Y, Shimizu E, Shivakumar V, Simpson HB, Soreni N, Soriano-Mas C, Sousa N, Spalletta G, Stern ER, Stevens MC, Stewart SE, Szeszko PR, Takahashi J, Tanamatis T, Tang J, Thorsen AL, Tolin D, van der Werf YD, van Marle H, van Wingen GA, Vecchio D, Venkatasubramanian G, Walitza S, Wang J, Wang Z, Watanabe A, Wolters LH, Xu X, Yun JY, Zhao Q, ENIGMA OCD Working Group, White T, Thompson PM, Stein DJ, van den Heuvel OA, Vriend C |
Translational psychiatry |
35190533 |
Transl Psychiatry |
2022 Feb 21 |
https://www.ncbi.nlm.nih.gov/pubmed/35190533 |
| Bayesian causal network modeling suggests adolescent cannabis use accelerates prefrontal cortical thinning. |
Owens MM, Albaugh MD, Allgaier N, Yuan D, Robert G, Cupertino RB, Spechler PA, Juliano A, Hahn S, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Lemaitre H, Paus T, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Mackey S, Schumann G, Garavan H, IMAGEN Consortium |
Translational psychiatry |
35523763 |
Transl Psychiatry |
2022 May 6 |
https://www.ncbi.nlm.nih.gov/pubmed/35523763 |
| Investigating grey matter volumetric trajectories through the lifespan at the individual level. |
Shi R, Xiang S, Jia T, Robbins TW, Kang J, Banaschewski T, Barker GJ, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Paus T, Poustka L, Hohmann S, Millenet S, Fröhner JH, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Lin X, Sahakian BJ, Feng J, IMAGEN Consortium |
Nature communications |
39009591 |
Nat Commun |
2024 Jul 15 |
https://www.ncbi.nlm.nih.gov/pubmed/39009591 |
| Distinct personality profiles associated with disease risk and diagnostic status in eating disorders. |
Zhang Z, Robinson L, Campbell I, Irish M, Bobou M, Winterer J, Zhang Y, King S, Vaidya N, Broulidakis MJ, van Noort BM, Stringaris A, Banaschewski T, Bokde ALW, Brühl R, Fröhner JH, Grigis A, Garavan H, Gowland P, Heinz A, Hohmann S, Martinot JL, Martinot MP, Nees F, Orfanos DP, Paus T, Poustka L, Sinclair J, Smolka MN, Walter H, Whelan R, Schumann G, Schmidt U, Desrivières S, IMAGEN, ESTRA, STRATIFY Consortia |
Journal of affective disorders |
38810783 |
J Affect Disord |
2024 Sep 1 |
https://www.ncbi.nlm.nih.gov/pubmed/38810783 |
| Cortical and Subcortical Brain Alterations in Specific Phobia and Its Animal and Blood-Injection-Injury Subtypes: A Mega-Analysis From the ENIGMA Anxiety Working Group. |
Hilbert K, Boeken OJ, Langhammer T, Groenewold NA, Bas-Hoogendam JM, Aghajani M, Zugman A, Åhs F, Arolt V, Beesdo-Baum K, Björkstrand J, Blackford JU, Blanco-Hinojo L, Böhnlein J, Bülow R, Cano M, Cardoner N, Caseras X, Dannlowski U, Domschke K, Fehm L, Feola B, Fredrikson M, Goossens L, Grabe HJ, Grotegerd D, Gur RE, Hamm AO, Harrewijn A, Heinig I, Herrmann MJ, Hofmann D, Jackowski AP, Jansen A, Kaczkurkin AN, Kindt M, Kingsley EN, Kircher T, Klahn AL, Koelkebeck K, Krug A, Kugel H, Larsen B, Leehr EJ, Leonhardt L, Lotze M, Margraf J, Michałowski J, Muehlhan M, Nenadić I, Pan PM, Pauli P, Peñate W, Pittig A, Plag J, Pujol J, Richter J, Rivero FL, Salum GA, Satterthwaite TD, Schäfer A, Schäfer J, Schienle A, Schneider S, Schrammen E, Schruers K, Schulz SM, Seidl E, Stark RM, Stein F, Straube B, Straube T, Ströhle A, Suchan B, Thomopoulos SI, Ventura-Bort C, Visser R, Völzke H, Wabnegger A, Wannemüller A, Wendt J, Wiemer J, Wittchen HU, Wittfeld K, Wright B, Yang Y, Zilverstand A, Zwanzger P, Veltman DJ, Winkler AM, Pine DS, Jahanshad N, Thompson PM, Stein DJ, Van der Wee NJA, Lueken U |
The American journal of psychiatry |
38859702 |
Am J Psychiatry |
2024 Aug 1 |
https://www.ncbi.nlm.nih.gov/pubmed/38859702 |
| Copy-number variants and polygenic risk for intelligence confer risk for autism spectrum disorder irrespective of their effects on cognitive ability. |
Schmilovich Z, Bourque VR, Douard E, Huguet G, Poulain C, Ross JP, Alipour P, Castonguay CÉ, Younis N, Jean-Louis M, Saci Z, Pausova Z, Paus T, Schuman G, Porteous D, Davies G, Redmond P, Harris SE, Deary IJ, Whalley H, Hayward C, Dion PA, Jacquemont S, Rouleau GA |
medRxiv : the preprint server for health sciences |
38076919 |
medRxiv |
2023 Nov 29 |
https://www.ncbi.nlm.nih.gov/pubmed/38076919 |
| Normative Modeling of Brain Morphometry Across the Lifespan Using CentileBrain: Algorithm Benchmarking and Model Optimization. |
Ge R, Yu Y, Qi YX, Fan YV, Chen S, Gao C, Haas SS, Modabbernia A, New F, Agartz I, Asherson P, Ayesa-Arriola R, Banaj N, Banaschewski T, Baumeister S, Bertolino A, Boomsma DI, Borgwardt S, Bourque J, Brandeis D, Breier A, Brodaty H, Brouwer RM, Buckner R, Buitelaar JK, Cannon DM, Caseras X, Cervenka S, Conrod PJ, Crespo-Facorro B, Crivello F, Crone EA, de Haan L, de Zubicaray GI, Di Giorgio A, Erk S, Fisher SE, Franke B, Frodl T, Glahn DC, Grotegerd D, Gruber O, Gruner P, Gur RE, Gur RC, Harrison BJ, Hatton SN, Hickie I, Howells FM, Hulshoff Pol HE, Huyser C, Jernigan TL, Jiang J, Joska JA, Kahn RS, Kalnin AJ, Kochan NA, Koops S, Kuntsi J, Lagopoulos J, Lazaro L, Lebedeva IS, Lochner C, Martin NG, Mazoyer B, McDonald BC, McDonald C, McMahon KL, Nakao T, Nyberg L, Piras F, Portella MJ, Qiu J, Roffman JL, Sachdev PS, Sanford N, Satterthwaite TD, Saykin AJ, Schumann G, Sellgren CM, Sim K, Smoller JW, Soares J, Sommer IE, Spalletta G, Stein DJ, Tamnes CK, Thomopolous SI, Tomyshev AS, Tordesillas-Gutiérrez D, Trollor JN, van 't Ent D, van den Heuvel OA, van Erp TG, van Haren NE, Vecchio D, Veltman DJ, Walter H, Wang Y, Weber B, Wei D, Wen W, Westlye LT, Wierenga LM, Williams SC, Wright MJ, Medland S, Wu MJ, Yu K, Jahanshad N, Thompson PM, Frangou S |
bioRxiv : the preprint server for biology |
38076938 |
bioRxiv |
2023 Dec 2 |
https://www.ncbi.nlm.nih.gov/pubmed/38076938 |
| Adolescents' pain-related ontogeny shares a neural basis with adults' chronic pain in basothalamo-cortical organization. |
Heukamp NJ, Banaschewski T, Bokde ALW, Desrivières S, Grigis A, Garavan H, Gowland P, Heinz A, Kandić M, Brühl R, Martinot JL, Paillère Martinot ML, Artiges E, Papadopoulos Orfanos D, Lemaitre H, Löffler M, Poustka L, Hohmann S, Millenet S, Fröhner JH, Smolka MN, Usai K, Vaidya N, Walter H, Whelan R, Schumann G, Flor H, Nees F, IMAGEN Consortium |
iScience |
38322983 |
iScience |
2024 Feb 16 |
https://www.ncbi.nlm.nih.gov/pubmed/38322983 |
| Multimodal Analysis of Secondary Cerebellar Alterations After Pediatric Traumatic Brain Injury. |
Keleher F, Lindsey HM, Kerestes R, Amiri H, Asarnow RF, Babikian T, Bartnik-Olson B, Bigler ED, Caeyenberghs K, Esopenko C, Ewing-Cobbs L, Giza CC, Goodrich-Hunsaker NJ, Hodges CB, Hoskinson KR, Irimia A, Königs M, Max JE, Newsome MR, Olsen A, Ryan NP, Schmidt AT, Stein DJ, Suskauer SJ, Ware AL, Wheeler AL, Zielinski BA, Thompson PM, Harding IH, Tate DF, Wilde EA, Dennis EL |
JAMA network open |
37966838 |
JAMA Netw Open |
2023 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/37966838 |
| Differing impact of the COVID-19 pandemic on youth mental health: combined population and clinical study. |
Qi L, Zhang Z, Robinson L, Bobou M, Gourlan C, Winterer J, Adams R, Agunbiade K, Zhang Y, King S, Vaidya N, Artiges E, Banaschewski T, Bokde ALW, Broulidakis MJ, Brühl R, Flor H, Fröhner JH, Garavan H, Grigis A, Heinz A, Hohmann S, Martinot MP, Millenet S, Nees F, van Noort BM, Orfanos DP, Poustka L, Sinclair J, Smolka MN, Whelan R, Stringaris A, Walter H, Martinot JL, Schumann G, Schmidt U, Desrivières S, IMAGEN Consortium, ESTRA Consortium and STRATIFY Consortium |
BJPsych open |
37981567 |
BJPsych Open |
2023 Nov 20 |
https://www.ncbi.nlm.nih.gov/pubmed/37981567 |
| Genetics impact risk of Alzheimer's disease through mechanisms modulating structural brain morphology in late life. |
Korologou-Linden R, Xu B, Coulthard E, Walton E, Wearn A, Hemani G, White T, Cecil C, Sharp T, Tiemeier H, Banaschewski T, Bokde A, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Paillère Martinot ML, Artiges E, Nees F, Orfanos DP, Paus T, Poustka L, Millenet S, Fröhner JH, Smolka M, Walter H, Winterer J, Whelan R, Schumann G, Howe LD, Ben-Shlomo Y, Davies NM, Anderson EL |
Journal of neurology, neurosurgery, and psychiatry |
38663994 |
J Neurol Neurosurg Psychiatry |
2025 Mar 24 |
https://www.ncbi.nlm.nih.gov/pubmed/38663994 |
| Social cognition in 22q11.2 deletion syndrome and idiopathic developmental neuropsychiatric disorders. |
Jalal R, Nair A, Lin A, Eckfeld A, Kushan L, Zinberg J, Karlsgodt KH, Cannon TD, Bearden CE |
Journal of neurodevelopmental disorders |
33863277 |
J Neurodev Disord |
2021 Apr 17 |
https://www.ncbi.nlm.nih.gov/pubmed/33863277 |
| FreeSurfer-based segmentation of hippocampal subfields: A review of methods and applications, with a novel quality control procedure for ENIGMA studies and other collaborative efforts. |
Sämann PG, Iglesias JE, Gutman B, Grotegerd D, Leenings R, Flint C, Dannlowski U, Clarke-Rubright EK, Morey RA, van Erp TGM, Whelan CD, Han LKM, van Velzen LS, Cao B, Augustinack JC, Thompson PM, Jahanshad N, Schmaal L |
Human brain mapping |
33368865 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33368865 |
| Effects of copy number variations on brain structure and risk for psychiatric illness: Large-scale studies from the ENIGMA working groups on CNVs. |
Sønderby IE, Ching CRK, Thomopoulos SI, van der Meer D, Sun D, Villalon-Reina JE, Agartz I, Amunts K, Arango C, Armstrong NJ, Ayesa-Arriola R, Bakker G, Bassett AS, Boomsma DI, Bülow R, Butcher NJ, Calhoun VD, Caspers S, Chow EWC, Cichon S, Ciufolini S, Craig MC, Crespo-Facorro B, Cunningham AC, Dale AM, Dazzan P, de Zubicaray GI, Djurovic S, Doherty JL, Donohoe G, Draganski B, Durdle CA, Ehrlich S, Emanuel BS, Espeseth T, Fisher SE, Ge T, Glahn DC, Grabe HJ, Gur RE, Gutman BA, Haavik J, Håberg AK, Hansen LA, Hashimoto R, Hibar DP, Holmes AJ, Hottenga JJ, Hulshoff Pol HE, Jalbrzikowski M, Knowles EEM, Kushan L, Linden DEJ, Liu J, Lundervold AJ, Martin-Brevet S, Martínez K, Mather KA, Mathias SR, McDonald-McGinn DM, McRae AF, Medland SE, Moberget T, Modenato C, Monereo Sánchez J, Moreau CA, Mühleisen TW, Paus T, Pausova Z, Prieto C, Ragothaman A, Reinbold CS, Reis Marques T, Repetto GM, Reymond A, Roalf DR, Rodriguez-Herreros B, Rucker JJ, Sachdev PS, Schmitt JE, Schofield PR, Silva AI, Stefansson H, Stein DJ, Tamnes CK, Tordesillas-Gutiérrez D, Ulfarsson MO, Vajdi A, van 't Ent D, van den Bree MBM, Vassos E, Vázquez-Bourgon J, Vila-Rodriguez F, Walters GB, Wen W, Westlye LT, Wittfeld K, Zackai EH, Stefánsson K, Jacquemont S, Thompson PM, Bearden CE, Andreassen OA, ENIGMA-CNV Working Group, ENIGMA 22q11.2 Deletion Syndrome Working Group |
Human brain mapping |
33615640 |
Hum Brain Mapp |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33615640 |
| Are psychotic-like experiences related to a discontinuation of cannabis consumption in young adults? |
Daedelow LS, Banaschewski T, Berning M, Bokde ALW, Brühl R, Burke Quinlan E, Curran HV, Desrivières S, Flor H, Grigis A, Garavan H, Hardon A, Kaminski J, Martinot JL, Paillère Martinot ML, Artiges E, Murray H, Nees F, Oei NYL, Papadopoulos Orfanos D, Paus T, Poustka L, Hohmann S, Millenet S, Rosenthal A, Fröhner JH, Smolka MN, Walter H, Whelan R, Wiers RW, Schumann G, Heinz A, ERANID Consortium, IMAGEN Consortium |
Schizophrenia research |
33493775 |
Schizophr Res |
2021 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/33493775 |
| Predicting future cognitive decline with hyperbolic stochastic coding. |
Zhang J, Dong Q, Shi J, Li Q, Stonnington CM, Gutman BA, Chen K, Reiman EM, Caselli RJ, Thompson PM, Ye J, Wang Y |
Medical image analysis |
33711742 |
Med Image Anal |
2021 May |
https://www.ncbi.nlm.nih.gov/pubmed/33711742 |
| Are Sex Differences in Human Brain Structure Associated With Sex Differences in Behavior? |
van Eijk L, Zhu D, Couvy-Duchesne B, Strike LT, Lee AJ, Hansell NK, Thompson PM, de Zubicaray GI, McMahon KL, Wright MJ, Zietsch BP |
Psychological science |
34323639 |
Psychol Sci |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/34323639 |
| TEMPORALLY ADAPTIVE-DYNAMIC SPARSE NETWORK FOR MODELING DISEASE PROGRESSION. |
Zhang J, Wang Y |
Proceedings. IEEE International Symposium on Biomedical Imaging |
34012506 |
Proc IEEE Int Symp Biomed Imaging |
2020 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/34012506 |
| Cell-type-specific effects of genetic variation on chromatin accessibility during human neuronal differentiation. |
Liang D, Elwell AL, Aygün N, Krupa O, Wolter JM, Kyere FA, Lafferty MJ, Cheek KE, Courtney KP, Yusupova M, Garrett ME, Ashley-Koch A, Crawford GE, Love MI, de la Torre-Ubieta L, Geschwind DH, Stein JL |
Nature neuroscience |
34017130 |
Nat Neurosci |
2021 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/34017130 |
| Structural brain imaging studies offer clues about the effects of the shared genetic etiology among neuropsychiatric disorders. |
Radonjić NV, Hess JL, Rovira P, Andreassen O, Buitelaar JK, Ching CRK, Franke B, Hoogman M, Jahanshad N, McDonald C, Schmaal L, Sisodiya SM, Stein DJ, van den Heuvel OA, van Erp TGM, van Rooij D, Veltman DJ, Thompson P, Faraone SV |
Molecular psychiatry |
33456050 |
Mol Psychiatry |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/33456050 |
| Adolescent to young adult longitudinal development of subcortical volumes in two European sites with four waves. |
Backhausen LL, Fröhner JH, Lemaître H, Artiges E, Martinot MP, Herting MM, Sticca F, Banaschewski T, Barker GJ, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Nees F, Papadopoulos-Orfanos D, Poustka L, Hohmann S, Robinson L, Walter H, Winterer J, Whelan R, Schumann G, Martinot JL, Smolka MN, Vetter NC, IMAGEN Consortium |
Human brain mapping |
38401132 |
Hum Brain Mapp |
2024 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/38401132 |
| Genetics of cell-type-specific post-transcriptional gene regulation during human neurogenesis. |
Aygün N, Vuong C, Krupa O, Mory J, Le BD, Valone JM, Liang D, Shafie B, Zhang P, Salinda A, Wen C, Gandal MJ, Love MI, de la Torre-Ubieta L, Stein JL |
American journal of human genetics |
39168119 |
Am J Hum Genet |
2024 Sep 5 |
https://www.ncbi.nlm.nih.gov/pubmed/39168119 |
| Population clustering of structural brain aging and its association with brain development. |
Duan H, Shi R, Kang J, Banaschewski T, Bokde ALW, Büchel C, Desrivières S, Flor H, Grigis A, Garavan H, Gowland PA, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Papadopoulos Orfanos D, Poustka L, Hohmann S, Nathalie Holz N, Fröhner J, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Lin X, Feng J |
eLife |
39422662 |
Elife |
2024 Oct 18 |
https://www.ncbi.nlm.nih.gov/pubmed/39422662 |
| Gene-environment interactions in the influence of maternal education on adolescent neurodevelopment using ABCD study. |
Shi R, Chang X, Banaschewski T, Barker GJ, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Poustka L, Hohmann S, Holz N, Smolka MN, Vaidya N, Walter H, Whelan R, Schumann G, Lin X, Feng J, IMAGEN Consortium |
Science advances |
39546599 |
Sci Adv |
2024 Nov 15 |
https://www.ncbi.nlm.nih.gov/pubmed/39546599 |
| Functional Connectivity Predicts Individual Development of Inhibitory Control during Adolescence. |
Wang H, Fan L, Song M, Liu B, Wu D, Jiang R, Li J, Li A, Banaschewski T, Bokde ALW, Quinlan EB, Desrivières S, Flor H, Grigis A, Garavan H, Chaarani B, Gowland P, Heinz A, Ittermann B, Martinot JL, Martinot MP, Artiges E, Nees F, Orfanos DP, Poustka L, Millenet S, Fröhner JH, Smolka MN, Walter H, Whelan R, Schumann G, Jiang T |
Cerebral cortex (New York, N.Y. : 1991) |
33386409 |
Cereb Cortex |
2021 Mar 31 |
https://www.ncbi.nlm.nih.gov/pubmed/33386409 |
| Coordinating Global Multi-Site Studies of Military-Relevant Traumatic Brain Injury: Opportunities, Challenges, and Harmonization Guidelines. |
Tate DF, Dennis EL, Adams JT, Adamson MM, Belanger HG, Bigler ED, Bouchard HC, Clark AL, Delano-Wood LM, Disner SG, Eapen BC, Franz CE, Geuze E, Goodrich-Hunsaker NJ, Han K, Hayes JP, Hinds SR 2nd, Hodges CB, Hovenden ES, Irimia A, Kenney K, Koerte IK, Kremen WS, Levin HS, Lindsey HM, Morey RA, Newsome MR, Ollinger J, Pugh MJ, Scheibel RS, Shenton ME, Sullivan DR, Taylor BA, Troyanskaya M, Velez C, Wade BS, Wang X, Ware AL, Zafonte R, Thompson PM, Wilde EA |
Brain imaging and behavior |
33409819 |
Brain Imaging Behav |
2021 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/33409819 |
| Decentralized Multisite VBM Analysis During Adolescence Shows Structural Changes Linked to Age, Body Mass Index, and Smoking: a COINSTAC Analysis. |
Gazula H, Holla B, Zhang Z, Xu J, Verner E, Kelly R, Jain S, Bharath RD, Barker GJ, Basu D, Chakrabarti A, Kalyanram K, Kumaran K, Singh L, Kuriyan R, Murthy P, Benega V, Plis SM, Sarwate AD, Turner JA, Schumann G, Calhoun VD |
Neuroinformatics |
33462781 |
Neuroinformatics |
2021 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/33462781 |
| Local molecular and global connectomic contributions to cross-disorder cortical abnormalities. |
Hansen JY, Shafiei G, Vogel JW, Smart K, Bearden CE, Hoogman M, Franke B, van Rooij D, Buitelaar J, McDonald CR, Sisodiya SM, Schmaal L, Veltman DJ, van den Heuvel OA, Stein DJ, van Erp TGM, Ching CRK, Andreassen OA, Hajek T, Opel N, Modinos G, Aleman A, van der Werf Y, Jahanshad N, Thomopoulos SI, Thompson PM, Carson RE, Dagher A, Misic B |
Nature communications |
35948562 |
Nat Commun |
2022 Aug 10 |
https://www.ncbi.nlm.nih.gov/pubmed/35948562 |
| Multiscale neural gradients reflect transdiagnostic effects of major psychiatric conditions on cortical morphology. |
Park BY, Kebets V, Larivière S, Hettwer MD, Paquola C, van Rooij D, Buitelaar J, Franke B, Hoogman M, Schmaal L, Veltman DJ, van den Heuvel OA, Stein DJ, Andreassen OA, Ching CRK, Turner JA, van Erp TGM, Evans AC, Dagher A, Thomopoulos SI, Thompson PM, Valk SL, Kirschner M, Bernhardt BC |
Communications biology |
36168040 |
Commun Biol |
2022 Sep 27 |
https://www.ncbi.nlm.nih.gov/pubmed/36168040 |
| MicroRNA-eQTLs in the developing human neocortex link miR-4707-3p expression to brain size. |
Lafferty MJ, Aygün N, Patel NK, Krupa O, Liang D, Wolter JM, Geschwind DH, de la Torre-Ubieta L, Stein JL |
eLife |
36629315 |
Elife |
2023 Jan 11 |
https://www.ncbi.nlm.nih.gov/pubmed/36629315 |
| Volume of subcortical brain regions in social anxiety disorder: mega-analytic results from 37 samples in the ENIGMA-Anxiety Working Group. |
Groenewold NA, Bas-Hoogendam JM, Amod AR, Laansma MA, Van Velzen LS, Aghajani M, Hilbert K, Oh H, Salas R, Jackowski AP, Pan PM, Salum GA, Blair JR, Blair KS, Hirsch J, Pantazatos SP, Schneier FR, Talati A, Roelofs K, Volman I, Blanco-Hinojo L, Cardoner N, Pujol J, Beesdo-Baum K, Ching CRK, Thomopoulos SI, Jansen A, Kircher T, Krug A, Nenadić I, Stein F, Dannlowski U, Grotegerd D, Lemke H, Meinert S, Winter A, Erb M, Kreifelts B, Gong Q, Lui S, Zhu F, Mwangi B, Soares JC, Wu MJ, Bayram A, Canli M, Tükel R, Westenberg PM, Heeren A, Cremers HR, Hofmann D, Straube T, Doruyter AGG, Lochner C, Peterburs J, Van Tol MJ, Gur RE, Kaczkurkin AN, Larsen B, Satterthwaite TD, Filippi CA, Gold AL, Harrewijn A, Zugman A, Bülow R, Grabe HJ, Völzke H, Wittfeld K, Böhnlein J, Dohm K, Kugel H, Schrammen E, Zwanzger P, Leehr EJ, Sindermann L, Ball TM, Fonzo GA, Paulus MP, Simmons A, Stein MB, Klumpp H, Phan KL, Furmark T, Månsson KNT, Manzouri A, Avery SN, Blackford JU, Clauss JA, Feola B, Harper JC, Sylvester CM, Lueken U, Veltman DJ, Winkler AM, Jahanshad N, Pine DS, Thompson PM, Stein DJ, Van der Wee NJA |
Molecular psychiatry |
36653677 |
Mol Psychiatry |
2023 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/36653677 |
| Federated Analysis in COINSTAC Reveals Functional Network Connectivity and Spectral Links to Smoking and Alcohol Consumption in Nearly 2,000 Adolescent Brains. |
Gazula H, Rootes-Murdy K, Holla B, Basodi S, Zhang Z, Verner E, Kelly R, Murthy P, Chakrabarti A, Basu D, Bhagyalakshmi Nanjayya S, Lenin Singh R, Lourembam Singh R, Kalyanram K, Kartik K, Kalyanaraman K, Ghattu K, Kuriyan R, Kurpad SS, Barker GJ, Bharath RD, Desrivieres S, Purushottam M, Orfanos DP, Sharma E, Hickman M, Toledano M, Vaidya N, Banaschewski T, Bokde ALW, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Paillére Martinot ML, Artiges E, Nees F, Paus T, Poustka L, Fröhner JH, Robinson L, Smolka MN, Walter H, Winterer J, Whelan R, IMAGEN Consortium, Turner JA, Sarwate AD, Plis SM, Benegal V, Schumann G, Calhoun VD |
Neuroinformatics |
36434478 |
Neuroinformatics |
2023 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/36434478 |
| Associations of medication with subcortical morphology across the lifespan in OCD: Results from the international ENIGMA Consortium. |
Ivanov I, Boedhoe PSW, Abe Y, Alonso P, Ameis SH, Arnold PD, Balachander S, Baker JT, Banaj N, Bargalló N, Batistuzzo MC, Benedetti F, Beucke JC, Bollettini I, Brem S, Brennan BP, Buitelaar J, Calvo R, Cheng Y, Cho KIK, Dallaspezia S, Denys D, Diniz JB, Ely BA, Feusner JD, Ferreira S, Fitzgerald KD, Fontaine M, Gruner P, Hanna GL, Hirano Y, Hoexter MQ, Huyser C, Ikari K, James A, Jaspers-Fayer F, Jiang H, Kathmann N, Kaufmann C, Kim M, Koch K, Kwon JS, Lázaro L, Liu Y, Lochner C, Marsh R, Martínez-Zalacaín I, Mataix-Cols D, Menchón JM, Minuzzi L, Morer A, Morgado P, Nakagawa A, Nakamae T, Nakao T, Narayanaswamy JC, Nurmi EL, Oh S, Perriello C, Piacentini JC, Picó-Pérez M, Piras F, Piras F, Reddy YCJ, Manrique DR, Sakai Y, Shimizu E, Simpson HB, Soreni N, Soriano-Mas C, Spalletta G, Stern ER, Stevens MC, Stewart SE, Szeszko PR, Tolin DF, van Rooij D, Veltman DJ, van der Werf YD, van Wingen GA, Venkatasubramanian G, Walitza S, Wang Z, Watanabe A, Wolters LH, Xu X, Yun JY, Zarei M, Zhang F, Zhao Q, Jahanshad N, Thomopoulos SI, Thompson PM, Stein DJ, van den Heuvel OA, O'Neill J, ENIGMA-OCD Working Group |
Journal of affective disorders |
36041582 |
J Affect Disord |
2022 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/36041582 |
| Association of Brain Age, Lesion Volume, and Functional Outcome in Patients With Stroke. |
Liew SL, Schweighofer N, Cole JH, Zavaliangos-Petropulu A, Tavenner BP, Han LKM, Hahn T, Schmaal L, Donnelly MR, Jeong JN, Wang Z, Abdullah A, Kim JH, Hutton A, Barisano G, Borich MR, Boyd LA, Brodtmann A, Buetefisch CM, Byblow WD, Cassidy JM, Charalambous CC, Ciullo V, Conforto AB, Dacosta-Aguayo R, DiCarlo JA, Domin M, Dula AN, Egorova-Brumley N, Feng W, Geranmayeh F, Gregory CM, Hanlon CA, Hayward K, Holguin JA, Hordacre B, Jahanshad N, Kautz SA, Khlif MS, Kim H, Kuceyeski A, Lin DJ, Liu J, Lotze M, MacIntosh BJ, Margetis JL, Mataro M, Mohamed FB, Olafson ER, Park G, Piras F, Revill KP, Roberts P, Robertson AD, Sanossian N, Schambra HM, Seo NJ, Soekadar SR, Spalletta G, Stinear CM, Taga M, Tang WK, Thielman GT, Vecchio D, Ward NS, Westlye LT, Winstein CJ, Wittenberg GF, Wolf SL, Wong KA, Yu C, Cramer SC, Thompson PM |
Neurology |
37015818 |
Neurology |
2023 May 16 |
https://www.ncbi.nlm.nih.gov/pubmed/37015818 |
| Cortical differences across psychiatric disorders and associated common and rare genetic variants. |
Kumar K, Liao Z, Kopal J, Moreau C, Ching CRK, Modenato C, Snyder W, Kazem S, Martin CO, Bélanger AM, Fontaine VK, Jizi K, Boen R, Huguet G, Saci Z, Kushan L, Silva AI, 16p11.2 European Consortium, Simons Searchlight Consortium, van den Bree MBM, Linden DEJ, Owen MJ, Hall J, Lippé S, Dumas G, Draganski B, Almasy L, Thomopoulos SI, Jahanshad N, Sønderby IE, Andreassen OA, Glahn DC, Raznahan A, Bearden CE, Paus T, Thompson PM, Jacquemont S |
medRxiv : the preprint server for health sciences |
40321288 |
medRxiv |
2025 Apr 19 |
https://www.ncbi.nlm.nih.gov/pubmed/40321288 |
| Dissecting heterogeneity in cortical thickness abnormalities in major depressive disorder: a large-scale ENIGMA MDD normative modelling study. |
Bayer JMM, van Velzen LS, Pozzi E, Davey C, Han LKM, Bauduin SEEC, Bauer J, Benedetti F, Berger K, Bonnekoh LM, Brosch K, Bülow R, Couvy-Duchesne B, Cullen KR, Dannlowski U, Dima D, Dohm K, Evans JW, Fu CHY, Fuentes-Claramonte P, Godlewska BR, Goltermann J, Gonul A, Goya-Maldonado R, Grabe HJ, Groenewold NA, Grotegerd D, Gruber O, Hahn T, Hall GB, Hamilton J, Harrison BJ, Hatton SN, Hermesdorf M, Hickie IB, Ho TC, Jahanshad N, Jansen A, Jamieson AJ, Kamishikiryo T, Kircher T, Klimes-Dougan B, Krämer B, Kraus A, Krug A, Leehr EJ, Leenings R, Li M, McIntosh A, Medland SE, Meinert S, Melloni E, Mwangi B, Nenadić I, Okada G, Oudega M, Portella MJ, Rodríguez E, Romaniuk L, Rosa PG, Sacchet MD, Salvador R, Sämann PG, Shinzato H, Sim K, Simulionyte E, Soares JC, Stein DJ, Stein F, Stolicyn A, Straube B, Strike LT, Teutenberg L, Thomas-Odenthal F, Thomopoulos SI, Usemann P, van der Wee NJA, Völzke H, Wagenmakers M, Walter M, Whalley HC, Whittle S, Winter NR, Wittfeld K, Wu M, Yang TT, Zarate CA, Zunta-Soares GB, Thompson PM, Veltman DJ, Marquand AF, Schmaal L |
bioRxiv : the preprint server for biology |
40166143 |
bioRxiv |
2025 Mar 18 |
https://www.ncbi.nlm.nih.gov/pubmed/40166143 |
| Neurocognitive characterization of behaviour and mental illness through time-varying brain network analysis. |
Chang X, Jia T, Fu Z, Xiang S, Xia Y, Xie C, Zou J, Cao M, Zhang J, Banaschewski T, Bokde ALW, Desrivières S, Flor H, Grigis A, Garavan H, Gowland P, Heinz A, Brühl R, Martinot JL, Martinot MP, Artiges E, Nees F, Papadopoulos Orfanos D, Frouin V, Poustka L, Hohmann S, Baeuchl C, Smolka MN, Vaidya N, Walter H, Whelan R, Feng J, Calhoun VD, Schumann G, IMAGEN Consortium, EnvironMENTAL Consortium |
Nature communications |
41633990 |
Nat Commun |
2026 Feb 3 |
https://www.ncbi.nlm.nih.gov/pubmed/41633990 |
| Optimizing the Approach to Calculating CST Lesion Load in Ischemic Stroke Patients for Understanding Motor Outcomes. |
Williamson BJ, Behymer T, Schwarz A, Vagal A, Winstein CJ, Borich MR, Hanlon C, Dimyan M, Conforto AB, Piras F, Vecchio D, Hordacre B, Boyd LA, Ferris JK, Cassidy JM, Thomopoulos SI, Jahanshad N, Thompson PM, Khan M, Liew SL, Cramer SC |
Neurorehabilitation and neural repair |
41766678 |
Neurorehabil Neural Repair |
2026 Mar 2 |
https://www.ncbi.nlm.nih.gov/pubmed/41766678 |
| Mirror effect of genomic deletions and duplications on cognitive ability across the human cerebral cortex. |
Kumar K, Kazem S, Huguet G, Engchuan W, Kopal J, Renne T, Shanta O, Thiruvahindrapuram B, MacDonald JR, Mollon J, Schultz LM, Knowles EEM, Porteous D, Davies G, Redmond P, Harris SE, Cox SR, Schumann G, Pausova Z, Greenwood CMT, Paus T, Scherer SW, Almasy L, Sebat J, Glahn DC, Dumas G, Jacquemont S |
bioRxiv : the preprint server for biology |
41292898 |
bioRxiv |
2025 Nov 12 |
https://www.ncbi.nlm.nih.gov/pubmed/41292898 |
| A synthetic-diploid benchmark for accurate variant-calling evaluation. |
Li H, Bloom JM, Farjoun Y, Fleharty M, Gauthier L, Neale B, MacArthur D |
Nature methods |
30013044 |
Nat Methods |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30013044 |
| Quantifying prion disease penetrance using large population control cohorts. |
Minikel EV, Vallabh SM, Lek M, Estrada K, Samocha KE, Sathirapongsasuti JF, McLean CY, Tung JY, Yu LP, Gambetti P, Blevins J, Zhang S, Cohen Y, Chen W, Yamada M, Hamaguchi T, Sanjo N, Mizusawa H, Nakamura Y, Kitamoto T, Collins SJ, Boyd A, Will RG, Knight R, Ponto C, Zerr I, Kraus TF, Eigenbrod S, Giese A, Calero M, de Pedro-Cuesta J, Haïk S, Laplanche JL, Bouaziz-Amar E, Brandel JP, Capellari S, Parchi P, Poleggi A, Ladogana A, O'Donnell-Luria AH, Karczewski KJ, Marshall JL, Boehnke M, Laakso M, Mohlke KL, Kähler A, Chambert K, McCarroll S, Sullivan PF, Hultman CM, Purcell SM, Sklar P, van der Lee SJ, Rozemuller A, Jansen C, Hofman A, Kraaij R, van Rooij JG, Ikram MA, Uitterlinden AG, van Duijn CM, Exome Aggregation Consortium (ExAC), Daly MJ, MacArthur DG |
Science translational medicine |
26791950 |
Sci Transl Med |
2016 Jan 20 |
https://www.ncbi.nlm.nih.gov/pubmed/26791950 |
| Patterns of genic intolerance of rare copy number variation in 59,898 human exomes. |
Ruderfer DM, Hamamsy T, Lek M, Karczewski KJ, Kavanagh D, Samocha KE, Exome Aggregation Consortium, Daly MJ, MacArthur DG, Fromer M, Purcell SM |
Nature genetics |
27533299 |
Nat Genet |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/27533299 |
| Analysis of protein-coding genetic variation in 60,706 humans. |
Lek M, Karczewski KJ, Minikel EV, Samocha KE, Banks E, Fennell T, O'Donnell-Luria AH, Ware JS, Hill AJ, Cummings BB, Tukiainen T, Birnbaum DP, Kosmicki JA, Duncan LE, Estrada K, Zhao F, Zou J, Pierce-Hoffman E, Berghout J, Cooper DN, Deflaux N, DePristo M, Do R, Flannick J, Fromer M, Gauthier L, Goldstein J, Gupta N, Howrigan D, Kiezun A, Kurki MI, Moonshine AL, Natarajan P, Orozco L, Peloso GM, Poplin R, Rivas MA, Ruano-Rubio V, Rose SA, Ruderfer DM, Shakir K, Stenson PD, Stevens C, Thomas BP, Tiao G, Tusie-Luna MT, Weisburd B, Won HH, Yu D, Altshuler DM, Ardissino D, Boehnke M, Danesh J, Donnelly S, Elosua R, Florez JC, Gabriel SB, Getz G, Glatt SJ, Hultman CM, Kathiresan S, Laakso M, McCarroll S, McCarthy MI, McGovern D, McPherson R, Neale BM, Palotie A, Purcell SM, Saleheen D, Scharf JM, Sklar P, Sullivan PF, Tuomilehto J, Tsuang MT, Watkins HC, Wilson JG, Daly MJ, MacArthur DG, Exome Aggregation Consortium |
Nature |
27535533 |
Nature |
2016 Aug 18 |
https://www.ncbi.nlm.nih.gov/pubmed/27535533 |
| Integration of 60,000 exomes and ACMG guidelines question the role of Catecholaminergic Polymorphic Ventricular Tachycardia-associated variants. |
Paludan-Müller C, Ahlberg G, Ghouse J, Herfelt C, Svendsen JH, Haunsø S, Kanters JK, Olesen MS |
Clinical genetics |
27538377 |
Clin Genet |
2017 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/27538377 |
| Landscape of multi-nucleotide variants in 125,748 human exomes and 15,708 genomes. |
Wang Q, Pierce-Hoffman E, Cummings BB, Alföldi J, Francioli LC, Gauthier LD, Hill AJ, O'Donnell-Luria AH, Genome Aggregation Database Production Team, Genome Aggregation Database Consortium, Karczewski KJ, MacArthur DG |
Nature communications |
32461613 |
Nat Commun |
2020 May 27 |
https://www.ncbi.nlm.nih.gov/pubmed/32461613 |
| Characterising the loss-of-function impact of 5' untranslated region variants in 15,708 individuals. |
Whiffin N, Karczewski KJ, Zhang X, Chothani S, Smith MJ, Evans DG, Roberts AM, Quaife NM, Schafer S, Rackham O, Alföldi J, O'Donnell-Luria AH, Francioli LC, Genome Aggregation Database Production Team, Genome Aggregation Database Consortium, Cook SA, Barton PJR, MacArthur DG, Ware JS |
Nature communications |
32461616 |
Nat Commun |
2020 May 27 |
https://www.ncbi.nlm.nih.gov/pubmed/32461616 |
| Reappraisal of variants previously linked with sudden infant death syndrome: results from three population-based cohorts. |
Paludan-Müller C, Ghouse J, Vad OB, Herfelt CB, Lundegaard P, Ahlberg G, Schmitt N, Svendsen JH, Haunsø S, Bundgaard H, Hansen T, Kanters JK, Olesen MS |
European journal of human genetics : EJHG |
31043699 |
Eur J Hum Genet |
2019 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/31043699 |
| The ExAC browser: displaying reference data information from over 60 000 exomes. |
Karczewski KJ, Weisburd B, Thomas B, Solomonson M, Ruderfer DM, Kavanagh D, Hamamsy T, Lek M, Samocha KE, Cummings BB, Birnbaum D, The Exome Aggregation Consortium, Daly MJ, MacArthur DG |
Nucleic acids research |
27899611 |
Nucleic Acids Res |
2017 Jan 4 |
https://www.ncbi.nlm.nih.gov/pubmed/27899611 |
| Evaluating drug targets through human loss-of-function genetic variation. |
Minikel EV, Karczewski KJ, Martin HC, Cummings BB, Whiffin N, Rhodes D, Alföldi J, Trembath RC, van Heel DA, Daly MJ, Genome Aggregation Database Production Team, Genome Aggregation Database Consortium, Schreiber SL, MacArthur DG |
Nature |
32461653 |
Nature |
2020 May |
https://www.ncbi.nlm.nih.gov/pubmed/32461653 |
| Reassessment of Mendelian gene pathogenicity using 7,855 cardiomyopathy cases and 60,706 reference samples. |
Walsh R, Thomson KL, Ware JS, Funke BH, Woodley J, McGuire KJ, Mazzarotto F, Blair E, Seller A, Taylor JC, Minikel EV, Exome Aggregation Consortium, MacArthur DG, Farrall M, Cook SA, Watkins H |
Genetics in medicine : official journal of the American College of Medical Genetics |
27532257 |
Genet Med |
2017 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/27532257 |
| Ultra-rare disruptive and damaging mutations influence educational attainment in the general population. |
Ganna A, Genovese G, Howrigan DP, Byrnes A, Kurki M, Zekavat SM, Whelan CW, Kals M, Nivard MG, Bloemendal A, Bloom JM, Goldstein JI, Poterba T, Seed C, Handsaker RE, Natarajan P, Mägi R, Gage D, Robinson EB, Metspalu A, Salomaa V, Suvisaari J, Purcell SM, Sklar P, Kathiresan S, Daly MJ, McCarroll SA, Sullivan PF, Palotie A, Esko T, Hultman C, Neale BM |
Nature neuroscience |
27694993 |
Nat Neurosci |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27694993 |
| Publicly Available Data Provide Evidence against NR1H3 R415Q Causing Multiple Sclerosis. |
Minikel EV, MacArthur DG |
Neuron |
27764668 |
Neuron |
2016 Oct 19 |
https://www.ncbi.nlm.nih.gov/pubmed/27764668 |
| Refining the role of de novo protein-truncating variants in neurodevelopmental disorders by using population reference samples. |
Kosmicki JA, Samocha KE, Howrigan DP, Sanders SJ, Slowikowski K, Lek M, Karczewski KJ, Cutler DJ, Devlin B, Roeder K, Buxbaum JD, Neale BM, MacArthur DG, Wall DP, Robinson EB, Daly MJ |
Nature genetics |
28191890 |
Nat Genet |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/28191890 |
| ClinVar data parsing. |
Zhang X, Minikel EV, O'Donnell-Luria AH, MacArthur DG, Ware JS, Weisburd B |
Wellcome open research |
28630944 |
Wellcome Open Res |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28630944 |
| Landscape of X chromosome inactivation across human tissues. |
Tukiainen T, Villani AC, Yen A, Rivas MA, Marshall JL, Satija R, Aguirre M, Gauthier L, Fleharty M, Kirby A, Cummings BB, Castel SE, Karczewski KJ, Aguet F, Byrnes A, GTEx Consortium, Laboratory, Data Analysis &Coordinating Center (LDACC)—Analysis Working Group, Statistical Methods groups—Analysis Working Group, Enhancing GTEx (eGTEx) groups, NIH Common Fund, NIH/NCI, NIH/NHGRI, NIH/NIMH, NIH/NIDA, Biospecimen Collection Source Site—NDRI, Biospecimen Collection Source Site—RPCI, Biospecimen Core Resource—VARI, Brain Bank Repository—University of Miami Brain Endowment Bank, Leidos Biomedical—Project Management, ELSI Study, Genome Browser Data Integration &Visualization—EBI, Genome Browser Data Integration &Visualization—UCSC Genomics Institute, University of California Santa Cruz, Lappalainen T, Regev A, Ardlie KG, Hacohen N, MacArthur DG |
Nature |
29022598 |
Nature |
2017 Oct 11 |
https://www.ncbi.nlm.nih.gov/pubmed/29022598 |
| Variant interpretation using population databases: Lessons from gnomAD. |
Gudmundsson S, Singer-Berk M, Watts NA, Phu W, Goodrich JK, Solomonson M, Genome Aggregation Database Consortium, Rehm HL, MacArthur DG, O'Donnell-Luria A |
Human mutation |
34859531 |
Hum Mutat |
2022 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/34859531 |
| The Scalable Variant Call Representation: Enabling Genetic Analysis Beyond One Million Genomes. |
Poterba T, Vittal C, King D, Goldstein D, Goldstein JI, Schultz P, Karczewski KJ, Seed C, Neale BM |
bioRxiv : the preprint server for biology |
38260295 |
bioRxiv |
2024 Jan 10 |
https://www.ncbi.nlm.nih.gov/pubmed/38260295 |
| Transcript expression-aware annotation improves rare variant interpretation. |
Cummings BB, Karczewski KJ, Kosmicki JA, Seaby EG, Watts NA, Singer-Berk M, Mudge JM, Karjalainen J, Satterstrom FK, O'Donnell-Luria AH, Poterba T, Seed C, Solomonson M, Alföldi J, Genome Aggregation Database Production Team, Genome Aggregation Database Consortium, Daly MJ, MacArthur DG |
Nature |
32461655 |
Nature |
2020 May |
https://www.ncbi.nlm.nih.gov/pubmed/32461655 |
| The effect of LRRK2 loss-of-function variants in humans. |
Whiffin N, Armean IM, Kleinman A, Marshall JL, Minikel EV, Goodrich JK, Quaife NM, Cole JB, Wang Q, Karczewski KJ, Cummings BB, Francioli L, Laricchia K, Guan A, Alipanahi B, Morrison P, Baptista MAS, Merchant KM, Genome Aggregation Database Production Team, Genome Aggregation Database Consortium, Ware JS, Havulinna AS, Iliadou B, Lee JJ, Nadkarni GN, Whiteman C, 23andMe Research Team, Daly M, Esko T, Hultman C, Loos RJF, Milani L, Palotie A, Pato C, Pato M, Saleheen D, Sullivan PF, Alföldi J, Cannon P, MacArthur DG |
Nature medicine |
32461697 |
Nat Med |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/32461697 |
| Using High-Resolution Variant Frequencies Empowers Clinical Genome Interpretation and Enables Investigation of Genetic Architecture. |
Whiffin N, Roberts AM, Minikel E, Zappala Z, Walsh R, O'Donnell-Luria AH, Karczewski KJ, Harrison SM, Thomson KL, Sage H, Ing AY, Barton PJR, Funke B, Cook SA, MacArthur DG, Ware JS |
American journal of human genetics |
30609406 |
Am J Hum Genet |
2019 Jan 3 |
https://www.ncbi.nlm.nih.gov/pubmed/30609406 |
| Quantifying the Impact of Rare and Ultra-rare Coding Variation across the Phenotypic Spectrum. |
Ganna A, Satterstrom FK, Zekavat SM, Das I, Kurki MI, Churchhouse C, Alfoldi J, Martin AR, Havulinna AS, Byrnes A, Thompson WK, Nielsen PR, Karczewski KJ, Saarentaus E, Rivas MA, Gupta N, Pietiläinen O, Emdin CA, Lescai F, Bybjerg-Grauholm J, Flannick J, GoT2D/T2D-GENES Consortium, Mercader JM, Udler M, SIGMA Consortium Helmsley IBD Exome Sequencing Project, FinMetSeq Consortium, iPSYCH-Broad Consortium, Laakso M, Salomaa V, Hultman C, Ripatti S, Hämäläinen E, Moilanen JS, Körkkö J, Kuismin O, Nordentoft M, Hougaard DM, Mors O, Werge T, Mortensen PB, MacArthur D, Daly MJ, Sullivan PF, Locke AE, Palotie A, Børglum AD, Kathiresan S, Neale BM |
American journal of human genetics |
29861106 |
Am J Hum Genet |
2018 Jun 7 |
https://www.ncbi.nlm.nih.gov/pubmed/29861106 |
| Pathogenic ASXL1 somatic variants in reference databases complicate germline variant interpretation for Bohring-Opitz Syndrome. |
Carlston CM, O'Donnell-Luria AH, Underhill HR, Cummings BB, Weisburd B, Minikel EV, Birnbaum DP, Exome Aggregation Consortium, Tvrdik T, MacArthur DG, Mao R |
Human mutation |
28229513 |
Hum Mutat |
2017 May |
https://www.ncbi.nlm.nih.gov/pubmed/28229513 |
| Using high-resolution variant frequencies to empower clinical genome interpretation. |
Whiffin N, Minikel E, Walsh R, O'Donnell-Luria AH, Karczewski K, Ing AY, Barton PJR, Funke B, Cook SA, MacArthur D, Ware JS |
Genetics in medicine : official journal of the American College of Medical Genetics |
28518168 |
Genet Med |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/28518168 |
| Health and population effects of rare gene knockouts in adult humans with related parents. |
Narasimhan VM, Hunt KA, Mason D, Baker CL, Karczewski KJ, Barnes MR, Barnett AH, Bates C, Bellary S, Bockett NA, Giorda K, Griffiths CJ, Hemingway H, Jia Z, Kelly MA, Khawaja HA, Lek M, McCarthy S, McEachan R, O'Donnell-Luria A, Paigen K, Parisinos CA, Sheridan E, Southgate L, Tee L, Thomas M, Xue Y, Schnall-Levin M, Petkov PM, Tyler-Smith C, Maher ER, Trembath RC, MacArthur DG, Wright J, Durbin R, van Heel DA |
Science (New York, N.Y.) |
26940866 |
Science |
2016 Apr 22 |
https://www.ncbi.nlm.nih.gov/pubmed/26940866 |
| Quantifying unobserved protein-coding variants in human populations provides a roadmap for large-scale sequencing projects. |
Zou J, Valiant G, Valiant P, Karczewski K, Chan SO, Samocha K, Lek M, Sunyaev S, Daly M, MacArthur DG |
Nature communications |
27796292 |
Nat Commun |
2016 Oct 31 |
https://www.ncbi.nlm.nih.gov/pubmed/27796292 |
| The mutational constraint spectrum quantified from variation in 141,456 humans. |
Karczewski KJ, Francioli LC, Tiao G, Cummings BB, Alföldi J, Wang Q, Collins RL, Laricchia KM, Ganna A, Birnbaum DP, Gauthier LD, Brand H, Solomonson M, Watts NA, Rhodes D, Singer-Berk M, England EM, Seaby EG, Kosmicki JA, Walters RK, Tashman K, Farjoun Y, Banks E, Poterba T, Wang A, Seed C, Whiffin N, Chong JX, Samocha KE, Pierce-Hoffman E, Zappala Z, O'Donnell-Luria AH, Minikel EV, Weisburd B, Lek M, Ware JS, Vittal C, Armean IM, Bergelson L, Cibulskis K, Connolly KM, Covarrubias M, Donnelly S, Ferriera S, Gabriel S, Gentry J, Gupta N, Jeandet T, Kaplan D, Llanwarne C, Munshi R, Novod S, Petrillo N, Roazen D, Ruano-Rubio V, Saltzman A, Schleicher M, Soto J, Tibbetts K, Tolonen C, Wade G, Talkowski ME, Genome Aggregation Database Consortium, Neale BM, Daly MJ, MacArthur DG |
Nature |
32461654 |
Nature |
2020 May |
https://www.ncbi.nlm.nih.gov/pubmed/32461654 |
| Mitochondrial DNA variation across 56,434 individuals in gnomAD. |
Laricchia KM, Lake NJ, Watts NA, Shand M, Haessly A, Gauthier L, Benjamin D, Banks E, Soto J, Garimella K, Emery J, Genome Aggregation Database Consortium, Rehm HL, MacArthur DG, Tiao G, Lek M, Mootha VK, Calvo SE |
Genome research |
35074858 |
Genome Res |
2022 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/35074858 |
| A genomic mutational constraint map using variation in 76,156 human genomes. |
Chen S, Francioli LC, Goodrich JK, Collins RL, Kanai M, Wang Q, Alföldi J, Watts NA, Vittal C, Gauthier LD, Poterba T, Wilson MW, Tarasova Y, Phu W, Grant R, Yohannes MT, Koenig Z, Farjoun Y, Banks E, Donnelly S, Gabriel S, Gupta N, Ferriera S, Tolonen C, Novod S, Bergelson L, Roazen D, Ruano-Rubio V, Covarrubias M, Llanwarne C, Petrillo N, Wade G, Jeandet T, Munshi R, Tibbetts K, Genome Aggregation Database Consortium, O'Donnell-Luria A, Solomonson M, Seed C, Martin AR, Talkowski ME, Rehm HL, Daly MJ, Tiao G, Neale BM, MacArthur DG, Karczewski KJ |
Nature |
38057664 |
Nature |
2024 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/38057664 |
| Septic Cardiomyopathy: Getting to the Heart of the Matter. |
Sweeney TE, Khatri P |
Critical care medicine |
28212222 |
Crit Care Med |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28212222 |
| CEDAR OnDemand: a browser extension to generate ontology-based scientific metadata. |
Bukhari SAC, Martínez-Romero M, O' Connor MJ, Egyedi AL, Willrett D, Graybeal J, Musen MA, Cheung KH, Kleinstein SH |
BMC bioinformatics |
30012108 |
BMC Bioinformatics |
2018 Jul 16 |
https://www.ncbi.nlm.nih.gov/pubmed/30012108 |
| Semantic concept schema of the linear mixed model of experimental observations. |
Ćwiek-Kupczyńska H, Filipiak K, Markiewicz A, Rocca-Serra P, Gonzalez-Beltran AN, Sansone SA, Millet EJ, van Eeuwijk F, Ławrynowicz A, Krajewski P |
Scientific data |
32109232 |
Sci Data |
2020 Feb 27 |
https://www.ncbi.nlm.nih.gov/pubmed/32109232 |
| Evaluating FAIR maturity through a scalable, automated, community-governed framework. |
Wilkinson MD, Dumontier M, Sansone SA, Bonino da Silva Santos LO, Prieto M, Batista D, McQuilton P, Kuhn T, Rocca-Serra P, Crosas M, Schultes E |
Scientific data |
31541130 |
Sci Data |
2019 Sep 20 |
https://www.ncbi.nlm.nih.gov/pubmed/31541130 |
| The center for expanded data annotation and retrieval. |
Musen MA, Bean CA, Cheung KH, Dumontier M, Durante KA, Gevaert O, Gonzalez-Beltran A, Khatri P, Kleinstein SH, O'Connor MJ, Pouliot Y, Rocca-Serra P, Sansone SA, Wiser JA, CEDAR team |
Journal of the American Medical Informatics Association : JAMIA |
26112029 |
J Am Med Inform Assoc |
2015 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/26112029 |
| Obstacles to the reuse of study metadata in ClinicalTrials.gov. |
Miron L, Gonçalves RS, Musen MA |
Scientific data |
33339830 |
Sci Data |
2020 Dec 18 |
https://www.ncbi.nlm.nih.gov/pubmed/33339830 |
| Fast and Accurate Metadata Authoring Using Ontology-Based Recommendations. |
Martínez-Romero M, O'Connor MJ, Shankar RD, Panahiazar M, Willrett D, Egyedi AL, Gevaert O, Graybeal J, Musen MA |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
29854196 |
AMIA Annu Symp Proc |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29854196 |
| The CAIRR Pipeline for Submitting Standards-Compliant B and T Cell Receptor Repertoire Sequencing Studies to the National Center for Biotechnology Information Repositories. |
Bukhari SAC, O'Connor MJ, Martínez-Romero M, Egyedi AL, Willrett D, Graybeal J, Musen MA, Rubelt F, Cheung KH, Kleinstein SH |
Frontiers in immunology |
30166985 |
Front Immunol |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30166985 |
| NCBO Ontology Recommender 2.0: an enhanced approach for biomedical ontology recommendation. |
Martínez-Romero M, Jonquet C, O'Connor MJ, Graybeal J, Pazos A, Musen MA |
Journal of biomedical semantics |
28592275 |
J Biomed Semantics |
2017 Jun 7 |
https://www.ncbi.nlm.nih.gov/pubmed/28592275 |
| Identifiers for the 21st century: How to design, provision, and reuse persistent identifiers to maximize utility and impact of life science data. |
McMurry JA, Juty N, Blomberg N, Burdett T, Conlin T, Conte N, Courtot M, Deck J, Dumontier M, Fellows DK, Gonzalez-Beltran A, Gormanns P, Grethe J, Hastings J, Hériché JK, Hermjakob H, Ison JC, Jimenez RC, Jupp S, Kunze J, Laibe C, Le Novère N, Malone J, Martin MJ, McEntyre JR, Morris C, Muilu J, Müller W, Rocca-Serra P, Sansone SA, Sariyar M, Snoep JL, Soiland-Reyes S, Stanford NJ, Swainston N, Washington N, Williams AR, Wimalaratne SM, Winfree LM, Wolstencroft K, Goble C, Mungall CJ, Haendel MA, Parkinson H |
PLoS biology |
28662064 |
PLoS Biol |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28662064 |
| Predicting biomedical metadata in CEDAR: A study of Gene Expression Omnibus (GEO). |
Panahiazar M, Dumontier M, Gevaert O |
Journal of biomedical informatics |
28625880 |
J Biomed Inform |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28625880 |
| FAIRsharing as a community approach to standards, repositories and policies. |
Sansone SA, McQuilton P, Rocca-Serra P, Gonzalez-Beltran A, Izzo M, Lister AL, Thurston M, FAIRsharing Community |
Nature biotechnology |
30940948 |
Nat Biotechnol |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30940948 |
| Genome-wide expression for diagnosis of pulmonary tuberculosis: a multicohort analysis. |
Sweeney TE, Braviak L, Tato CM, Khatri P |
The Lancet. Respiratory medicine |
26907218 |
Lancet Respir Med |
2016 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/26907218 |
| The authors reply. |
Sweeney TE, Khatri P |
Critical care medicine |
28291107 |
Crit Care Med |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/28291107 |
| Unsupervised Analysis of Transcriptomics in Bacterial Sepsis Across Multiple Datasets Reveals Three Robust Clusters. |
Sweeney TE, Azad TD, Donato M, Haynes WA, Perumal TM, Henao R, Bermejo-Martin JF, Almansa R, Tamayo E, Howrylak JA, Choi A, Parnell GP, Tang B, Nichols M, Woods CW, Ginsburg GS, Kingsmore SF, Omberg L, Mangravite LM, Wong HR, Tsalik EL, Langley RJ, Khatri P |
Critical care medicine |
29537985 |
Crit Care Med |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29537985 |
| Sustainable data and metadata management at the BD2K-LINCS Data Coordination and Integration Center. |
Stathias V, Koleti A, Vidović D, Cooper DJ, Jagodnik KM, Terryn R, Forlin M, Chung C, Torre D, Ayad N, Medvedovic M, Ma'ayan A, Pillai A, Schürer SC |
Scientific data |
29917015 |
Sci Data |
2018 Jun 19 |
https://www.ncbi.nlm.nih.gov/pubmed/29917015 |
| Validation of the Sepsis MetaScore for Diagnosis of Neonatal Sepsis. |
Sweeney TE, Wynn JL, Cernada M, Serna E, Wong HR, Baker HV, Vento M, Khatri P |
Journal of the Pediatric Infectious Diseases Society |
28419265 |
J Pediatric Infect Dis Soc |
2018 May 15 |
https://www.ncbi.nlm.nih.gov/pubmed/28419265 |
| Using association rule mining and ontologies to generate metadata recommendations from multiple biomedical databases. |
Martínez-Romero M, O'Connor MJ, Egyedi AL, Willrett D, Hardi J, Graybeal J, Musen MA |
Database : the journal of biological databases and curation |
31210270 |
Database (Oxford) |
2019 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31210270 |
| The variable quality of metadata about biological samples used in biomedical experiments. |
Gonçalves RS, Musen MA |
Scientific data |
30778255 |
Sci Data |
2019 Feb 19 |
https://www.ncbi.nlm.nih.gov/pubmed/30778255 |
| The CEDAR Workbench: An Ontology-Assisted Environment for Authoring Metadata that Describe Scientific Experiments. |
Gonçalves RS, O'Connor MJ, Martínez-Romero M, Egyedi AL, Willrett D, Graybeal J, Musen MA |
The semantic Web--ISWC ... : ... International Semantic Web Conference ... proceedings. International Semantic Web Conference |
32219223 |
Semant Web ISWC |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/32219223 |
| Unique transcriptomic response to sepsis is observed among patients of different age groups. |
Raymond SL, López MC, Baker HV, Larson SD, Efron PA, Sweeney TE, Khatri P, Moldawer LL, Wynn JL |
PloS one |
28886074 |
PLoS One |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28886074 |
| Toward a complete dataset of drug-drug interaction information from publicly available sources. |
Ayvaz S, Horn J, Hassanzadeh O, Zhu Q, Stan J, Tatonetti NP, Vilar S, Brochhausen M, Samwald M, Rastegar-Mojarad M, Dumontier M, Boyce RD |
Journal of biomedical informatics |
25917055 |
J Biomed Inform |
2015 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/25917055 |
| Integrated, Multi-cohort Analysis Identifies Conserved Transcriptional Signatures across Multiple Respiratory Viruses. |
Andres-Terre M, McGuire HM, Pouliot Y, Bongen E, Sweeney TE, Tato CM, Khatri P |
Immunity |
26682989 |
Immunity |
2015 Dec 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26682989 |
| Achieving human and machine accessibility of cited data in scholarly publications. |
Starr J, Castro E, Crosas M, Dumontier M, Downs RR, Duerr R, Haak LL, Haendel M, Herman I, Hodson S, Hourclé J, Kratz JE, Lin J, Nielsen LH, Nurnberger A, Proell S, Rauber A, Sacchi S, Smith A, Taylor M, Clark T |
PeerJ. Computer science |
26167542 |
PeerJ Comput Sci |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26167542 |
| Cell-centred meta-analysis reveals baseline predictors of anti-TNFα non-response in biopsy and blood of patients with IBD. |
Gaujoux R, Starosvetsky E, Maimon N, Vallania F, Bar-Yoseph H, Pressman S, Weisshof R, Goren I, Rabinowitz K, Waterman M, Yanai H, Dotan I, Sabo E, Chowers Y, Khatri P, Shen-Orr SS, Israeli IBD research Network (IIRN) |
Gut |
29618496 |
Gut |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29618496 |
| EMPOWERING MULTI-COHORT GENE EXPRESSION ANALYSIS TO INCREASE REPRODUCIBILITY. |
Haynes WA, Vallania F, Liu C, Bongen E, Tomczak A, Andres-Terrè M, Lofgren S, Tam A, Deisseroth CA, Li MD, Sweeney TE, Khatri P |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
27896970 |
Pac Symp Biocomput |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/27896970 |
| Methods to increase reproducibility in differential gene expression via meta-analysis. |
Sweeney TE, Haynes WA, Vallania F, Ioannidis JP, Khatri P |
Nucleic acids research |
27634930 |
Nucleic Acids Res |
2017 Jan 9 |
https://www.ncbi.nlm.nih.gov/pubmed/27634930 |
| EBSeq-HMM: a Bayesian approach for identifying gene-expression changes in ordered RNA-seq experiments. |
Leng N, Li Y, McIntosh BE, Nguyen BK, Duffin B, Tian S, Thomson JA, Dewey CN, Stewart R, Kendziorski C |
Bioinformatics (Oxford, England) |
25847007 |
Bioinformatics |
2015 Aug 15 |
https://www.ncbi.nlm.nih.gov/pubmed/25847007 |
| Multiset Statistics for Gene Set Analysis. |
Newton MA, Wang Z |
Annual review of statistics and its application |
25914887 |
Annu Rev Stat Appl |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/25914887 |
| Comparing Mammography Abnormality Features to Genetic Variants in the Prediction of Breast Cancer in Women Recommended for Breast Biopsy. |
Burnside ES, Liu J, Wu Y, Onitilo AA, McCarty CA, Page CD, Peissig PL, Trentham-Dietz A, Kitchner T, Fan J, Yuan M |
Academic radiology |
26514439 |
Acad Radiol |
2016 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/26514439 |
| atSNP: transcription factor binding affinity testing for regulatory SNP detection. |
Zuo C, Shin S, Keleş S |
Bioinformatics (Oxford, England) |
26092860 |
Bioinformatics |
2015 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26092860 |
| Latent Variable Graphical Model Selection using Harmonic Analysis: Applications to the Human Connectome Project (HCP). |
Kim WH, Kim HJ, Adluru N, Singh V |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
28255221 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28255221 |
| Synthesizing Signaling Pathways from Temporal Phosphoproteomic Data. |
Köksal AS, Beck K, Cronin DR, McKenna A, Camp ND, Srivastava S, MacGilvray ME, Bodík R, Wolf-Yadlin A, Fraenkel E, Fisher J, Gitter A |
Cell reports |
30257219 |
Cell Rep |
2018 Sep 25 |
https://www.ncbi.nlm.nih.gov/pubmed/30257219 |
| Engineering induction of singular neural rosette emergence within hPSC-derived tissues. |
Knight GT, Lundin BF, Iyer N, Ashton LM, Sethares WA, Willett RM, Ashton RS |
eLife |
30371350 |
Elife |
2018 Oct 29 |
https://www.ncbi.nlm.nih.gov/pubmed/30371350 |
| Collaboration Matters: Honey Bee Health as a Transdisciplinary Model for Understanding Real-World Complexity. |
Suryanarayanan S, Kleinman DL, Gratton C, Toth A, Guedot C, Groves R, Piechowski J, Moore B, Hagedorn D, Kauth D, Swan H, Celley M |
Bioscience |
30524133 |
Bioscience |
2018 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30524133 |
| A Hierarchical Framework for State-Space Matrix Inference and Clustering. |
Zuo C, Chen K, Hewitt KJ, Bresnick EH, Keleş S |
The annals of applied statistics |
29910842 |
Ann Appl Stat |
2016 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/29910842 |
| The conserved protective cyclic AMP-phosphodiesterase function PDE4B is expressed in the adenoma and adjacent normal colonic epithelium of mammals and silenced in colorectal cancer. |
Pleiman JK, Irving AA, Wang Z, Toraason E, Clipson L, Dove WF, Deming DA, Newton MA |
PLoS genetics |
30188895 |
PLoS Genet |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/30188895 |
| Stochastic Learning for Sparse Discrete Markov Random Fields with Controlled Gradient Approximation Error. |
Geng S, Kuang Z, Liu J, Wright S, Page D |
Uncertainty in artificial intelligence : proceedings of the ... conference. Conference on Uncertainty in Artificial Intelligence |
30555282 |
Uncertain Artif Intell |
2018 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/30555282 |
| Notch signaling activation induces cell death in MAPKi-resistant melanoma cells. |
Mikheil DM, Prabhakar K, Arshad A, Rodriguez CI, Newton MA, Setaluri V |
Pigment cell & melanoma research |
30614626 |
Pigment Cell Melanoma Res |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30614626 |
| Data-Driven Mammography Screening Practices-Reply. |
Lee CS, Sickles EA, Burnside ES |
JAMA oncology |
29242927 |
JAMA Oncol |
2018 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29242927 |
| Statistical tests and identifiability conditions for pooling and analyzing multisite datasets. |
Zhou HH, Singh V, Johnson SC, Wahba G, Alzheimer’s Disease Neuroimaging Initiative |
Proceedings of the National Academy of Sciences of the United States of America |
29386387 |
Proc Natl Acad Sci U S A |
2018 Feb 13 |
https://www.ncbi.nlm.nih.gov/pubmed/29386387 |
| Annotation Regression for Genome-Wide Association Studies with an Application to Psychiatric Genomic Consortium Data. |
Shin S, Keleş S |
Statistics in biosciences |
28781711 |
Stat Biosci |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28781711 |
| Accelerating permutation testing in voxel-wise analysis through subspace tracking: A new plugin for SnPM. |
Gutierrez-Barragan F, Ithapu VK, Hinrichs C, Maumet C, Johnson SC, Nichols TE, Singh V, Alzheimer's Disease Neuroimaging Initiative |
NeuroImage |
28720551 |
Neuroimage |
2017 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28720551 |
| Comments on "Personalized dose finding using outcome weighted learning". |
Fan J, Yuan M |
Journal of the American Statistical Association |
28919653 |
J Am Stat Assoc |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28919653 |
| Hypothesis Testing in Unsupervised Domain Adaptation with Applications in Alzheimer's Disease. |
Zhou HH, Ravi SN, Ithapu VK, Johnson SC, Wahba G, Singh V |
Advances in neural information processing systems |
29308004 |
Adv Neural Inf Process Syst |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/29308004 |
| Gut microbiome populations are associated with structure-specific changes in white matter architecture. |
Ong IM, Gonzalez JG, McIlwain SJ, Sawin EA, Schoen AJ, Adluru N, Alexander AL, Yu JJ |
Translational psychiatry |
29317592 |
Transl Psychiatry |
2018 Jan 10 |
https://www.ncbi.nlm.nih.gov/pubmed/29317592 |
| BrainAGE and regional volumetric analysis of a Buddhist monk: a longitudinal MRI case study. |
Adluru N, Korponay CH, Norton DL, Goldman RI, Davidson RJ |
Neurocase |
32100616 |
Neurocase |
2020 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/32100616 |
| iFunMed: Integrative functional mediation analysis of GWAS and eQTL studies. |
Rojo C, Zhang Q, Keleş S |
Genetic epidemiology |
31328826 |
Genet Epidemiol |
2019 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/31328826 |
| Gene loci associated with insulin secretion in islets from non-diabetic mice. |
Keller MP, Rabaglia ME, Schueler KL, Stapleton DS, Gatti DM, Vincent M, Mitok KA, Wang Z, Ishimura T, Simonett SP, Emfinger CH, Das R, Beck T, Kendziorski C, Broman KW, Yandell BS, Churchill GA, Attie AD |
The Journal of clinical investigation |
31343992 |
J Clin Invest |
2019 Jul 25 |
https://www.ncbi.nlm.nih.gov/pubmed/31343992 |
| Recursive Feature Elimination by Sensitivity Testing. |
Escanilla NS, Hellerstein L, Kleiman R, Kuang Z, Shull JD, Page D |
Proceedings of the ... International Conference on Machine Learning and Applications. International Conference on Machine Learning and Applications |
31799516 |
Proc Int Conf Mach Learn Appl |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/31799516 |
| When can Multi-Site Datasets be Pooled for Regression? Hypothesis Tests, ℓ (2)-consistency and Neuroscience Applications. |
Zhou HH, Zhang Y, Ithapu VK, Johnson SC, Wahba G, Singh V |
Proceedings of machine learning research |
31742253 |
Proc Mach Learn Res |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31742253 |
| Optimizing the intrinsic parallel diffusivity in NODDI: An extensive empirical evaluation. |
Guerrero JM, Adluru N, Bendlin BB, Goldsmith HH, Schaefer SM, Davidson RJ, Kecskemeti SR, Zhang H, Alexander AL |
PloS one |
31553719 |
PLoS One |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31553719 |
| Noninvasive Detection of Colorectal Carcinomas Using Serum Protein Biomarkers. |
Ivancic MM, Megna BW, Sverchkov Y, Craven M, Reichelderfer M, Pickhardt PJ, Sussman MR, Kennedy GD |
The Journal of surgical research |
31586890 |
J Surg Res |
2020 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/31586890 |
| Manifold-valued Dirichlet Processes. |
Kim HJ, Xu J, Vemuri BC, Singh V |
JMLR workshop and conference proceedings |
26973982 |
JMLR Workshop Conf Proc |
2015 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/26973982 |
| A history of breast cancer and older age allow risk stratification of mammographic BI-RADS 3 ratings in the diagnostic setting. |
Benndorf M, Wu Y, Burnside ES |
Clinical imaging |
26995570 |
Clin Imaging |
2016 Mar-Apr |
https://www.ncbi.nlm.nih.gov/pubmed/26995570 |
| Hematopoietic Signaling Mechanism Revealed from a Stem/Progenitor Cell Cistrome. |
Hewitt KJ, Kim DH, Devadas P, Prathibha R, Zuo C, Sanalkumar R, Johnson KD, Kang YA, Kim JS, Dewey CN, Keles S, Bresnick EH |
Molecular cell |
26073540 |
Mol Cell |
2015 Jul 2 |
https://www.ncbi.nlm.nih.gov/pubmed/26073540 |
| A Utility/Cost Analysis of Breast Cancer Risk Prediction Algorithms. |
Abbey CK, Wu Y, Burnside ES, Wunderlich A, Samuelson FW, Boone JM |
Proceedings of SPIE--the International Society for Optical Engineering |
27335532 |
Proc SPIE Int Soc Opt Eng |
2016 Feb 27 |
https://www.ncbi.nlm.nih.gov/pubmed/27335532 |
| Sex-specific hippocampal 5-hydroxymethylcytosine is disrupted in response to acute stress. |
Papale LA, Li S, Madrid A, Zhang Q, Chen L, Chopra P, Jin P, Keleş S, Alisch RS |
Neurobiology of disease |
27576189 |
Neurobiol Dis |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27576189 |
| Making the cut: improved ranking and selection for large-scale inference. |
Henderson NC, Newton MA |
Journal of the Royal Statistical Society. Series B, Statistical methodology |
27570475 |
J R Stat Soc Series B Stat Methodol |
2016 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/27570475 |
| A MAD-Bayes Algorithm for State-Space Inference and Clustering with Application to Querying Large Collections of ChIP-Seq Data Sets. |
Zuo C, Chen K, Keleş S |
Journal of computational biology : a journal of computational molecular cell biology |
27835030 |
J Comput Biol |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/27835030 |
| RNA-Binding Protein IGF2BP1 in Cutaneous Squamous Cell Carcinoma. |
Kim T, Havighurst T, Kim K, Hebbring SJ, Ye Z, Aylward J, Keles S, Xu YG, Spiegelman VS |
The Journal of investigative dermatology |
27856289 |
J Invest Dermatol |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/27856289 |
| Using automatically extracted information from mammography reports for decision-support. |
Bozkurt S, Gimenez F, Burnside ES, Gulkesen KH, Rubin DL |
Journal of biomedical informatics |
27388877 |
J Biomed Inform |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/27388877 |
| Adaptive Signal Recovery on Graphs via Harmonic Analysis for Experimental Design in Neuroimaging. |
Kim WH, Hwang SJ, Adluru N, Johnson SC, Singh V |
Computer vision - ECCV ... : ... European Conference on Computer Vision : proceedings. European Conference on Computer Vision |
27807594 |
Comput Vis ECCV |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/27807594 |
| A Natural Language Interface for Dissemination of Reproducible Biomedical Data Science. |
John RJL, Patel JM, Alexander AL, Singh V, Adluru N |
Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention |
32412016 |
Med Image Comput Comput Assist Interv |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32412016 |
| LOCALIZING DIFFERENTIALLY EVOLVING COVARIANCE STRUCTURES VIA SCAN STATISTICS. |
Mehta R, Kim HJ, Wang S, Johnson SC, Yuan M, Singh V |
Quarterly of applied mathematics |
35125524 |
Q Appl Math |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/35125524 |
| SLC13A5/sodium-citrate co-transporter overexpression causes disrupted white matter integrity and an autistic-like phenotype. |
Rigby MJ, Orefice NS, Lawton AJ, Ma M, Shapiro SL, Yi SY, Dieterich IA, Frelka A, Miles HN, Pearce RA, Yu JPJ, Li L, Denu JM, Puglielli L |
Brain communications |
35146426 |
Brain Commun |
2022 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/35146426 |
| INFIMA leverages multi-omics model organism data to identify effector genes of human GWAS variants. |
Dong C, Simonett SP, Shin S, Stapleton DS, Schueler KL, Churchill GA, Lu L, Liu X, Jin F, Li Y, Attie AD, Keller MP, Keleş S |
Genome biology |
34425882 |
Genome Biol |
2021 Aug 23 |
https://www.ncbi.nlm.nih.gov/pubmed/34425882 |
| Scaling Recurrent Models via Orthogonal Approximations in Tensor Trains. |
Mehta R, Chakraborty R, Xiong Y, Singh V |
Proceedings. IEEE International Conference on Computer Vision |
35291675 |
Proc IEEE Int Conf Comput Vis |
2019 Oct-Nov |
https://www.ncbi.nlm.nih.gov/pubmed/35291675 |
| Machine Learning Assisted Discovery of Novel Predictive Lab Tests Using Electronic Health Record Data. |
Kleiman R, Kuusisto F, Ross I, Peissig PL, Stewart R, Page CD, Weiss J |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
31259012 |
AMIA Jt Summits Transl Sci Proc |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31259012 |
| Interaction of amyloid and tau on cortical microstructure in cognitively unimpaired adults. |
Vogt NM, Hunt JFV, Adluru N, Ma Y, Van Hulle CA, Iii DCD, Kecskemeti SR, Chin NA, Carlsson CM, Asthana S, Johnson SC, Kollmorgen G, Batrla R, Wild N, Buck K, Zetterberg H, Alexander AL, Blennow K, Bendlin BB |
Alzheimer's & dementia : the journal of the Alzheimer's Association |
33984184 |
Alzheimers Dement |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33984184 |
| Insights from the IronTract challenge: Optimal methods for mapping brain pathways from multi-shell diffusion MRI. |
Maffei C, Girard G, Schilling KG, Aydogan DB, Adluru N, Zhylka A, Wu Y, Mancini M, Hamamci A, Sarica A, Teillac A, Baete SH, Karimi D, Yeh FC, Yildiz ME, Gholipour A, Bihan-Poudec Y, Hiba B, Quattrone A, Quattrone A, Boshkovski T, Stikov N, Yap PT, de Luca A, Pluim J, Leemans A, Prabhakaran V, Bendlin BB, Alexander AL, Landman BA, Canales-Rodríguez EJ, Barakovic M, Rafael-Patino J, Yu T, Rensonnet G, Schiavi S, Daducci A, Pizzolato M, Fischi-Gomez E, Thiran JP, Dai G, Grisot G, Lazovski N, Puch S, Ramos M, Rodrigues P, Prčkovska V, Jones R, Lehman J, Haber SN, Yendiki A |
NeuroImage |
35636227 |
Neuroimage |
2022 Aug 15 |
https://www.ncbi.nlm.nih.gov/pubmed/35636227 |
| Defining mitochondrial protein functions through deep multiomic profiling. |
Rensvold JW, Shishkova E, Sverchkov Y, Miller IJ, Cetinkaya A, Pyle A, Manicki M, Brademan DR, Alanay Y, Raiman J, Jochem A, Hutchins PD, Peters SR, Linke V, Overmyer KA, Salome AZ, Hebert AS, Vincent CE, Kwiecien NW, Rush MJP, Westphall MS, Craven M, Akarsu NA, Taylor RW, Coon JJ, Pagliarini DJ |
Nature |
35614220 |
Nature |
2022 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/35614220 |
| Genome-wide disruption of 5-hydroxymethylcytosine in a mouse model of autism. |
Papale LA, Zhang Q, Li S, Chen K, Keleş S, Alisch RS |
Human molecular genetics |
26423458 |
Hum Mol Genet |
2015 Dec 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26423458 |
| A predictive modeling approach for cell line-specific long-range regulatory interactions. |
Roy S, Siahpirani AF, Chasman D, Knaack S, Ay F, Stewart R, Wilson M, Sridharan R |
Nucleic acids research |
26338778 |
Nucleic Acids Res |
2015 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/26338778 |
| Using computer-extracted image phenotypes from tumors on breast magnetic resonance imaging to predict breast cancer pathologic stage. |
Burnside ES, Drukker K, Li H, Bonaccio E, Zuley M, Ganott M, Net JM, Sutton EJ, Brandt KR, Whitman GJ, Conzen SD, Lan L, Ji Y, Zhu Y, Jaffe CC, Huang EP, Freymann JB, Kirby JS, Morris EA, Giger ML |
Cancer |
26619259 |
Cancer |
2016 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26619259 |
| OEFinder: a user interface to identify and visualize ordering effects in single-cell RNA-seq data. |
Leng N, Choi J, Chu LF, Thomson JA, Kendziorski C, Stewart R |
Bioinformatics (Oxford, England) |
26743507 |
Bioinformatics |
2016 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/26743507 |
| Developing a utility decision framework to evaluate predictive models in breast cancer risk estimation. |
Wu Y, Abbey CK, Chen X, Liu J, Page DC, Alagoz O, Peissig P, Onitilo AA, Burnside ES |
Journal of medical imaging (Bellingham, Wash.) |
26835489 |
J Med Imaging (Bellingham) |
2015 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/26835489 |
| MULTI-RESOLUTION STATISTICAL ANALYSIS ON GRAPH STRUCTURED DATA IN NEUROIMAGING. |
Kim WH, Singh V, Chung MK, Adluru N, Bendlin BB, Johnson SC |
Proceedings. IEEE International Symposium on Biomedical Imaging |
27284387 |
Proc IEEE Int Symp Biomed Imaging |
2015 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/27284387 |
| Integrative analysis with ChIP-seq advances the limits of transcript quantification from RNA-seq. |
Liu P, Sanalkumar R, Bresnick EH, Keleş S, Dewey CN |
Genome research |
27405803 |
Genome Res |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/27405803 |
| Further support for aneuploidy tolerance in wild yeast and effects of dosage compensation on gene copy-number evolution. |
Gasch AP, Hose J, Newton MA, Sardi M, Yong M, Wang Z |
eLife |
26949252 |
Elife |
2016 Mar 7 |
https://www.ncbi.nlm.nih.gov/pubmed/26949252 |
| MR Imaging Radiomics Signatures for Predicting the Risk of Breast Cancer Recurrence as Given by Research Versions of MammaPrint, Oncotype DX, and PAM50 Gene Assays. |
Li H, Zhu Y, Burnside ES, Drukker K, Hoadley KA, Fan C, Conzen SD, Whitman GJ, Sutton EJ, Net JM, Ganott M, Huang E, Morris EA, Perou CM, Ji Y, Giger ML |
Radiology |
27144536 |
Radiology |
2016 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/27144536 |
| Quantitative MRI radiomics in the prediction of molecular classifications of breast cancer subtypes in the TCGA/TCIA data set. |
Li H, Zhu Y, Burnside ES, Huang E, Drukker K, Hoadley KA, Fan C, Conzen SD, Zuley M, Net JM, Sutton E, Whitman GJ, Morris E, Perou CM, Ji Y, Giger ML |
NPJ breast cancer |
27853751 |
NPJ Breast Cancer |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27853751 |
| A Simple Approach to Shared Decision Making in Cancer Screening. |
Schrager SB, Phillips G, Burnside E |
Family practice management |
28671358 |
Fam Pract Manag |
2017 May/Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28671358 |
| RNA expression profiling in sulfamethoxazole-treated patients with a range of in vitro lymphocyte cytotoxicity phenotypes. |
Reinhart JM, Rose W, Panyard DJ, Newton MA, Liebenstein TK, Yee J, Trepanier LA |
Pharmacology research & perspectives |
29511567 |
Pharmacol Res Perspect |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29511567 |
| The Incremental Multiresolution Matrix Factorization Algorithm. |
Ithapu VK, Kondor R, Johnson SC, Singh V |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
29416293 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29416293 |
| Using Collaborative Simulation Modeling to Develop a Web-Based Tool to Support Policy-Level Decision Making About Breast Cancer Screening Initiation Age. |
Burnside ES, Lee SJ, Bennette C, Near AM, Alagoz O, Huang H, van den Broek JJ, Kim JY, Ergun MA, van Ravesteyn NT, Stout NK, de Koning HJ, Mandelblatt JS |
MDM policy & practice |
29376135 |
MDM Policy Pract |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29376135 |
| Pharmacovigilance via Baseline Regularization with Large-Scale Longitudinal Observational Data. |
Kuang Z, Peissig P, Costa VS, Maclin R, Page D |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
29755826 |
KDD |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/29755826 |
| Quantifying predictive capability of electronic health records for the most harmful breast cancer. |
Wu Y, Fan J, Peissig P, Berg R, Tafti AP, Yin J, Yuan M, Page D, Cox J, Burnside ES |
Proceedings of SPIE--the International Society for Optical Engineering |
29706685 |
Proc SPIE Int Soc Opt Eng |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29706685 |
| Anytime Exploration for Multi-armed Bandits using Confidence Information. |
Jun KS, Nowak R |
JMLR workshop and conference proceedings |
29541329 |
JMLR Workshop Conf Proc |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29541329 |
| Screening Breast MRI Outcomes in Routine Clinical Practice: Comparison to BI-RADS Benchmarks. |
Strigel RM, Rollenhagen J, Burnside ES, Elezaby M, Fowler AM, Kelcz F, Salkowski L, DeMartini WB |
Academic radiology |
27986508 |
Acad Radiol |
2017 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/27986508 |
| Dual PI3K/mTOR Inhibition in Colorectal Cancers with APC and PIK3CA Mutations. |
Foley TM, Payne SN, Pasch CA, Yueh AE, Van De Hey DR, Korkos DP, Clipson L, Maher ME, Matkowskyj KA, Newton MA, Deming DA |
Molecular cancer research : MCR |
28184015 |
Mol Cancer Res |
2017 Feb 9 |
https://www.ncbi.nlm.nih.gov/pubmed/28184015 |
| Cortical Microstructural Alterations in Mild Cognitive Impairment and Alzheimer's Disease Dementia. |
Vogt NM, Hunt JF, Adluru N, Dean DC, Johnson SC, Asthana S, Yu JJ, Alexander AL, Bendlin BB |
Cerebral cortex (New York, N.Y. : 1991) |
31833550 |
Cereb Cortex |
2020 May 14 |
https://www.ncbi.nlm.nih.gov/pubmed/31833550 |
| Learning High-dimensional Generalized Linear Autoregressive Models. |
Hall EC, Raskutti G, Willett RM |
IEEE transactions on information theory |
31839683 |
IEEE Trans Inf Theory |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31839683 |
| Ancestral Folate Promotes Neuronal Regeneration in Serial Generations of Progeny. |
Patel NJ, Hogan KJ, Rizk E, Stewart K, Madrid A, Vadakkadath Meethal S, Alisch R, Borth L, Papale LA, Ondoma S, Gorges LR, Weber K, Lake W, Bauer A, Hariharan N, Kuehn T, Cook T, Keles S, Newton MA, Iskandar BJ |
Molecular neurobiology |
31919777 |
Mol Neurobiol |
2020 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31919777 |
| Age-based versus Risk-based Mammography Screening in Women 40-49 Years Old: A Cross-sectional Study. |
Burnside ES, Trentham-Dietz A, Shafer CM, Hampton JM, Alagoz O, Cox JR, Mischo E, Schrager SB, Wilke LG |
Radiology |
31184557 |
Radiology |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31184557 |
| Disordered Antigens and Epitope Overlap Between Anti-Citrullinated Protein Antibodies and Rheumatoid Factor in Rheumatoid Arthritis. |
Zheng Z, Mergaert AM, Fahmy LM, Bawadekar M, Holmes CL, Ong IM, Bridges AJ, Newton MA, Shelef MA |
Arthritis & rheumatology (Hoboken, N.J.) |
31397047 |
Arthritis Rheumatol |
2020 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/31397047 |
| Riemannian Variance Filtering: An Independent Filtering Scheme for Statistical Tests on Manifold-valued Data. |
Zheng L, Kim HJ, Adluru N, Newton MA, Singh V |
Conference on Computer Vision and Pattern Recognition Workshops. IEEE Computer Society Conference on Computer Vision and Pattern Recognition. Workshops |
32355573 |
Conf Comput Vis Pattern Recognit Workshops |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/32355573 |
| Sampling-free Uncertainty Estimation in Gated Recurrent Units with Applications to Normative Modeling in Neuroimaging. |
Hwang SJ, Mehta RR, Kim HJ, Johnson SC, Singh V |
Uncertainty in artificial intelligence : proceedings of the ... conference. Conference on Uncertainty in Artificial Intelligence |
32405271 |
Uncertain Artif Intell |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/32405271 |
| Modeling Asthma Exacerbations from Electronic Health Records. |
Cobian A, Abbott M, Sood A, Sverchkov Y, Hanrahan L, Guilbert T, Craven M |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
32477628 |
AMIA Jt Summits Transl Sci Proc |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32477628 |
| Graph-based regularization for regression problems with alignment and highly-correlated designs. |
Li Y, Mark B, Raskutti G, Willett R, Song H, Neiman D |
SIAM journal on mathematics of data science |
32968717 |
SIAM J Math Data Sci |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32968717 |
| A geometric framework for statistical analysis of trajectories with distinct temporal spans. |
Chakraborty R, Singh V, Adluru N, Vemuri BC |
Proceedings. IEEE International Conference on Computer Vision |
32514257 |
Proc IEEE Int Conf Comput Vis |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/32514257 |
| MetaSRA: normalized human sample-specific metadata for the Sequence Read Archive. |
Bernstein MN, Doan A, Dewey CN |
Bioinformatics (Oxford, England) |
28535296 |
Bioinformatics |
2017 Sep 15 |
https://www.ncbi.nlm.nih.gov/pubmed/28535296 |
| Statistical Methods for Latent Class Quantitative Trait Loci Mapping. |
Ye S, Bacher R, Keller MP, Attie AD, Kendziorski C |
Genetics |
28550015 |
Genetics |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28550015 |
| Identification of tissue-specific transcriptional markers of caloric restriction in the mouse and their use to evaluate caloric restriction mimetics. |
Barger JL, Vann JM, Cray NL, Pugh TD, Mastaloudis A, Hester SN, Wood SM, Newton MA, Weindruch R, Prolla TA |
Aging cell |
28556428 |
Aging Cell |
2017 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28556428 |
| A review of active learning approaches to experimental design for uncovering biological networks. |
Sverchkov Y, Craven M |
PLoS computational biology |
28570593 |
PLoS Comput Biol |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28570593 |
| IPI59: An Actionable Biomarker to Improve Treatment Response in Serous Ovarian Carcinoma Patients. |
Choi J, Ye S, Eng KH, Korthauer K, Bradley WH, Rader JS, Kendziorski C |
Statistics in biosciences |
28966695 |
Stat Biosci |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28966695 |
| Applying family analyses to electronic health records to facilitate genetic research. |
Huang X, Elston RC, Rosa GJ, Mayer J, Ye Z, Kitchner T, Brilliant MH, Page D, Hebbring SJ |
Bioinformatics (Oxford, England) |
28968884 |
Bioinformatics |
2018 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/28968884 |
| Adverse Drug Event Discovery Using Biomedical Literature: A Big Data Neural Network Adventure. |
P Tafti A, Badger J, LaRose E, Shirzadi E, Mahnke A, Mayer J, Ye Z, Page D, Peissig P |
JMIR medical informatics |
29222076 |
JMIR Med Inform |
2017 Dec 8 |
https://www.ncbi.nlm.nih.gov/pubmed/29222076 |
| Computational Drug Repositioning Using Continuous Self-Controlled Case Series. |
Kuang Z, Thomson J, Caldwell M, Peissig P, Stewart R, Page D |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
28316874 |
KDD |
2016 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/28316874 |
| Association of Patient Age With Outcomes of Current-Era, Large-Scale Screening Mammography: Analysis of Data From the National Mammography Database. |
Lee CS, Sengupta D, Bhargavan-Chatfield M, Sickles EA, Burnside ES, Zuley ML |
JAMA oncology |
28426842 |
JAMA Oncol |
2017 Aug 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28426842 |
| A statistical approach for identifying differential distributions in single-cell RNA-seq experiments. |
Korthauer KD, Chu LF, Newton MA, Li Y, Thomson J, Stewart R, Kendziorski C |
Genome biology |
27782827 |
Genome Biol |
2016 Oct 25 |
https://www.ncbi.nlm.nih.gov/pubmed/27782827 |
| A Machine-Learning-Based Drug Repurposing Approach Using Baseline Regularization. |
Kuang Z, Bao Y, Thomson J, Caldwell M, Peissig P, Stewart R, Willett R, Page D |
Methods in molecular biology (Clifton, N.J.) |
30547447 |
Methods Mol Biol |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30547447 |
| CellO: comprehensive and hierarchical cell type classification of human cells with the Cell Ontology. |
Bernstein MN, Ma Z, Gleicher M, Dewey CN |
iScience |
33364592 |
iScience |
2021 Jan 22 |
https://www.ncbi.nlm.nih.gov/pubmed/33364592 |
| Optimizing Nondecomposable Data Dependent Regularizers via Lagrangian Reparameterization Offers Significant Performance and Efficiency Gains. |
Ravi SN, Venkatesh A, Fung GM, Singh V |
Proceedings of the ... AAAI Conference on Artificial Intelligence. AAAI Conference on Artificial Intelligence |
34094697 |
Proc AAAI Conf Artif Intell |
2020 Jun 16 |
https://www.ncbi.nlm.nih.gov/pubmed/34094697 |
| FairALM: Augmented Lagrangian Method for Training Fair Models with Little Regret. |
Lokhande VS, Akash AK, Ravi SN, Singh V |
Computer vision - ECCV ... : ... European Conference on Computer Vision : proceedings. European Conference on Computer Vision |
33462570 |
Comput Vis ECCV |
2020 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/33462570 |
| STRUCTURED CORRELATION DETECTION WITH APPLICATION TO COLOCALIZATION ANALYSIS IN DUAL-CHANNEL FLUORESCENCE MICROSCOPIC IMAGING. |
Wang S, Fan J, Pocock G, Arena ET, Eliceiri KW, Yuan M |
Statistica Sinica |
35046630 |
Stat Sin |
2021 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/35046630 |
| Increased expression of SLC25A1/CIC causes an autistic-like phenotype with altered neuron morphology. |
Rigby MJ, Orefice NS, Lawton AJ, Ma M, Shapiro SL, Yi SY, Dieterich IA, Frelka A, Miles HN, Pearce RA, Yu JPJ, Li L, Denu JM, Puglielli L |
Brain : a journal of neurology |
35203088 |
Brain |
2022 Apr 18 |
https://www.ncbi.nlm.nih.gov/pubmed/35203088 |
| Equivariance Allows Handling Multiple Nuisance Variables When Analyzing Pooled Neuroimaging Datasets. |
Lokhande VS, Ravi SN, Chakraborty R, Singh V |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
36268536 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2022 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/36268536 |
| A COMPOSITIONAL MODEL TO ASSESS EXPRESSION CHANGES FROM SINGLE-CELL RNA-SEQ DATA. |
Ma X, Korthauer K, Kendziorski C, Newton MA |
The annals of applied statistics |
37332668 |
Ann Appl Stat |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/37332668 |
| Recombination Analysis of Herpes Simplex Virus 1 Reveals a Bias toward GC Content and the Inverted Repeat Regions. |
Lee K, Kolb AW, Sverchkov Y, Cuellar JA, Craven M, Brandt CR |
Journal of virology |
25926637 |
J Virol |
2015 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/25926637 |
| Multivariate General Linear Models (MGLM) on Riemannian Manifolds with Applications to Statistical Analysis of Diffusion Weighted Images. |
Kim HJ, Adluru N, Collins MD, Chung MK, Bendlin BB, Johnson SC, Davidson RJ, Singh V |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
25580070 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2014 Jun 23 |
https://www.ncbi.nlm.nih.gov/pubmed/25580070 |
| Leveraging Interaction between Genetic Variants and Mammographic Findings for Personalized Breast Cancer Diagnosis. |
Liu J, Wu Y, Ong I, Page D, Peissig P, McCarty C, Onitilo AA, Burnside E |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
26306250 |
AMIA Jt Summits Transl Sci Proc |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26306250 |
| Statistical Inference Models for Image Datasets with Systematic Variations. |
Kim WH, Bendlin BB, Chung MK, Johnson SC, Singh V |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
26989336 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2015 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/26989336 |
| On Statistical Analysis of Neuroimages with Imperfect Registration. |
Kim WH, Ravi SN, Johnson SC, Okonkwo OC, Singh V |
Proceedings. IEEE International Conference on Computer Vision |
27042168 |
Proc IEEE Int Conf Comput Vis |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27042168 |
| Interpolation on the manifold of K component GMMs. |
Kim HJ, Adluru N, Banerjee M, Vemuri BC, Singh V |
Proceedings. IEEE International Conference on Computer Vision |
27042169 |
Proc IEEE Int Conf Comput Vis |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27042169 |
| A Projection free method for Generalized Eigenvalue Problem with a nonsmooth Regularizer. |
Hwang SJ, Collins MD, Ravi SN, Ithapu VK, Adluru N, Johnson SC, Singh V |
Proceedings. IEEE International Conference on Computer Vision |
27081374 |
Proc IEEE Int Conf Comput Vis |
2015 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27081374 |
| Mapping Murine Corneal Neovascularization and Weight Loss Virulence Determinants in the Herpes Simplex Virus 1 Genome and the Detection of an Epistatic Interaction between the UL and IRS/US Regions. |
Lee K, Kolb AW, Larsen I, Craven M, Brandt CR |
Journal of virology |
27384650 |
J Virol |
2016 Sep 15 |
https://www.ncbi.nlm.nih.gov/pubmed/27384650 |
| Abundant Inverse Regression using Sufficient Reduction and its Applications. |
Kim HJ, Smith BM, Adluru N, Dyer CR, Johnson SC, Singh V |
Computer vision - ECCV ... : ... European Conference on Computer Vision : proceedings. European Conference on Computer Vision |
27796010 |
Comput Vis ECCV |
2016 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/27796010 |
| Analysis of embryonic development in the unsequenced axolotl: Waves of transcriptomic upheaval and stability. |
Jiang P, Nelson JD, Leng N, Collins M, Swanson S, Dewey CN, Thomson JA, Stewart R |
Developmental biology |
27475628 |
Dev Biol |
2017 Jun 15 |
https://www.ncbi.nlm.nih.gov/pubmed/27475628 |
| A multi-task graph-clustering approach for chromosome conformation capture data sets identifies conserved modules of chromosomal interactions. |
Fotuhi Siahpirani A, Ay F, Roy S |
Genome biology |
27233632 |
Genome Biol |
2016 May 27 |
https://www.ncbi.nlm.nih.gov/pubmed/27233632 |
| Modeling the Temporal Evolution of Postoperative Complications. |
Feld SI, Cobian AG, Tevis SE, Kennedy GD, Craven MW |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
28269851 |
AMIA Annu Symp Proc |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/28269851 |
| Mammography Screening: Gaps in Patient's and Physician's Needs for Shared Decision-Making. |
DuBenske LL, Schrager S, McDowell H, Wilke LG, Trentham-Dietz A, Burnside ES |
The breast journal |
28252231 |
Breast J |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28252231 |
| Machine Learning Consensus Scoring Improves Performance Across Targets in Structure-Based Virtual Screening. |
Ericksen SS, Wu H, Zhang H, Michael LA, Newton MA, Hoffmann FM, Wildman SA |
Journal of chemical information and modeling |
28654262 |
J Chem Inf Model |
2017 Jul 24 |
https://www.ncbi.nlm.nih.gov/pubmed/28654262 |
| Utility of Genetic Testing in Addition to Mammography for Determining Risk of Breast Cancer Depends on Patient Age. |
Feld SI, Fan J, Yuan M, Wu Y, Woo KM, Alexandridis R, Burnside ES |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
29888046 |
AMIA Jt Summits Transl Sci Proc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29888046 |
| Comment. |
Reiss PT, Goldsmith J |
Journal of the American Statistical Association |
29479124 |
J Am Stat Assoc |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29479124 |
| Chromatin module inference on cellular trajectories identifies key transition points and poised epigenetic states in diverse developmental processes. |
Roy S, Sridharan R |
Genome research |
28424352 |
Genome Res |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28424352 |
| Anxiety-related experience-dependent white matter structural differences in adolescence: A monozygotic twin difference approach. |
Adluru N, Luo Z, Van Hulle CA, Schoen AJ, Davidson RJ, Alexander AL, Goldsmith HH |
Scientific reports |
28821748 |
Sci Rep |
2017 Aug 18 |
https://www.ncbi.nlm.nih.gov/pubmed/28821748 |
| Association of longitudinal white matter degeneration and cerebrospinal fluid biomarkers of neurodegeneration, inflammation and Alzheimer's disease in late-middle-aged adults. |
Racine AM, Merluzzi AP, Adluru N, Norton D, Koscik RL, Clark LR, Berman SE, Nicholas CR, Asthana S, Alexander AL, Blennow K, Zetterberg H, Kim WH, Singh V, Carlsson CM, Bendlin BB, Johnson SC |
Brain imaging and behavior |
28600739 |
Brain Imaging Behav |
2019 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/28600739 |
| Experimental Design on a Budget for Sparse Linear Models and Applications. |
Ravi SN, Ithapu VK, Johnson SC, Singh V |
JMLR workshop and conference proceedings |
28479945 |
JMLR Workshop Conf Proc |
2016 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28479945 |
| Differentiable Optimization of Generalized Nondecomposable Functions using Linear Programs. |
Meng Z, Mukherjee L, Wu Y, Singh V, Ravi SN |
Advances in neural information processing systems |
35387382 |
Adv Neural Inf Process Syst |
2021 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/35387382 |
| On Training Deep 3D CNN Models with Dependent Samples in Neuroimaging. |
Xiong Y, Kim HJ, Tangirala B, Mehta R, Johnson SC, Singh V |
Information processing in medical imaging : proceedings of the ... conference |
35125834 |
Inf Process Med Imaging |
2019 May |
https://www.ncbi.nlm.nih.gov/pubmed/35125834 |
| Combined Hypothesis Testing on Graphs with Applications to Gene Set Enrichment Analysis. |
Wang S, Yuan M |
Journal of the American Statistical Association |
35431372 |
J Am Stat Assoc |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/35431372 |
| Individual variation in white matter microstructure is related to better recovery from negative stimuli. |
Pedersen WS, Dean DC, Adluru N, Gresham LK, Lee SD, Kelly MP, Mumford JA, Davidson RJ, Schaefer SM |
Emotion (Washington, D.C.) |
34591511 |
Emotion |
2022 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/34591511 |
| Physarum Powered Differentiable Linear Programming Layers and Applications. |
Meng Z, Ravi SN, Singh V |
Proceedings of the ... AAAI Conference on Artificial Intelligence. AAAI Conference on Artificial Intelligence |
34484857 |
Proc AAAI Conf Artif Intell |
2021 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/34484857 |
| Learning Invariant Representations using Inverse Contrastive Loss. |
Akash AK, Lokhande VS, Ravi SN, Singh V |
Proceedings of the ... AAAI Conference on Artificial Intelligence. AAAI Conference on Artificial Intelligence |
34405058 |
Proc AAAI Conf Artif Intell |
2021 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/34405058 |
| Clinical translational neuroimaging of the antioxidant effect of N-acetylcysteine on neural microstructure. |
Yi SY, Barnett BR, Poetzel MJ, Stowe NA, Yu JJ |
Magnetic resonance in medicine |
34590731 |
Magn Reson Med |
2022 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/34590731 |
| Leveraging epigenomes and three-dimensional genome organization for interpreting regulatory variation. |
Baur B, Shin J, Schreiber J, Zhang S, Zhang Y, Manjunath M, Song JS, Stafford Noble W, Roy S |
PLoS computational biology |
37428809 |
PLoS Comput Biol |
2023 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/37428809 |
| Tractography passes the test: Results from the diffusion-simulated connectivity (disco) challenge. |
Girard G, Rafael-Patiño J, Truffet R, Aydogan DB, Adluru N, Nair VA, Prabhakaran V, Bendlin BB, Alexander AL, Bosticardo S, Gabusi I, Ocampo-Pineda M, Battocchio M, Piskorova Z, Bontempi P, Schiavi S, Daducci A, Stafiej A, Ciupek D, Bogusz F, Pieciak T, Frigo M, Sedlar S, Deslauriers-Gauthier S, Kojčić I, Zucchelli M, Laghrissi H, Ji Y, Deriche R, Schilling KG, Landman BA, Cacciola A, Basile GA, Bertino S, Newlin N, Kanakaraj P, Rheault F, Filipiak P, Shepherd TM, Lin YC, Placantonakis DG, Boada FE, Baete SH, Hernández-Gutiérrez E, Ramírez-Manzanares A, Coronado-Leija R, Stack-Sánchez P, Concha L, Descoteaux M, Mansour L S, Seguin C, Zalesky A, Marshall K, Canales-Rodríguez EJ, Wu Y, Ahmad S, Yap PT, Théberge A, Gagnon F, Massi F, Fischi-Gomez E, Gardier R, Haro JLV, Pizzolato M, Caruyer E, Thiran JP |
NeuroImage |
37330025 |
Neuroimage |
2023 Aug 15 |
https://www.ncbi.nlm.nih.gov/pubmed/37330025 |
| Temporal Poisson Square Root Graphical Models. |
Geng S, Kuang Z, Peissig P, Page D |
Proceedings of machine learning research |
31355361 |
Proc Mach Learn Res |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31355361 |
| Machine learning for phenotyping opioid overdose events. |
Badger J, LaRose E, Mayer J, Bashiri F, Page D, Peissig P |
Journal of biomedical informatics |
31028874 |
J Biomed Inform |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31028874 |
| Preference-Sensitive Management of Post-Mammography Decisions in Breast Cancer Diagnosis. |
Ayvaci MUS, Alagoz O, Ahsen ME, Burnside ES |
Production and operations management |
31031555 |
Prod Oper Manag |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/31031555 |
| Augmenting subnetwork inference with information extracted from the scientific literature. |
Kiblawi S, Chasman D, Henning A, Park E, Poon H, Gould M, Ahlquist P, Craven M |
PLoS computational biology |
31246951 |
PLoS Comput Biol |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31246951 |
| A Secondary Analysis of Panoramic Radiographs Reveals Hotspots in the Maxillofacial Region Associated with Diabetes. |
Pack GD, Craven M, Acharya A |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
32477669 |
AMIA Jt Summits Transl Sci Proc |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32477669 |
| SURF: integrative analysis of a compendium of RNA-seq and CLIP-seq datasets highlights complex governing of alternative transcriptional regulation by RNA-binding proteins. |
Chen F, Keleş S |
Genome biology |
32532357 |
Genome Biol |
2020 Jun 12 |
https://www.ncbi.nlm.nih.gov/pubmed/32532357 |
| Context-Specific Nested Effects Models. |
Sverchkov Y, Ho YH, Gasch A, Craven M |
Research in computational molecular biology : ... Annual International Conference, RECOMB ... : proceedings. RECOMB (Conference : 2005- ) |
30680375 |
Res Comput Mol Biol |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30680375 |
| Dilated Convolutional Neural Networks for Sequential Manifold-valued Data. |
Zhen X, Chakraborty R, Vogt N, Bendlin BB, Singh V |
Proceedings. IEEE International Conference on Computer Vision |
32405275 |
Proc IEEE Int Conf Comput Vis |
2019 Oct-Nov |
https://www.ncbi.nlm.nih.gov/pubmed/32405275 |
| Conditional Recurrent Flow: Conditional Generation of Longitudinal Samples with Applications to Neuroimaging. |
Hwang SJ, Tao Z, Kim WH, Singh V |
Proceedings. IEEE International Conference on Computer Vision |
32405276 |
Proc IEEE Int Conf Comput Vis |
2019 Oct-Nov |
https://www.ncbi.nlm.nih.gov/pubmed/32405276 |
| Opportunities and obstacles for deep learning in biology and medicine. |
Ching T, Himmelstein DS, Beaulieu-Jones BK, Kalinin AA, Do BT, Way GP, Ferrero E, Agapow PM, Zietz M, Hoffman MM, Xie W, Rosen GL, Lengerich BJ, Israeli J, Lanchantin J, Woloszynek S, Carpenter AE, Shrikumar A, Xu J, Cofer EM, Lavender CA, Turaga SC, Alexandari AM, Lu Z, Harris DJ, DeCaprio D, Qi Y, Kundaje A, Peng Y, Wiley LK, Segler MHS, Boca SM, Swamidass SJ, Huang A, Gitter A, Greene CS |
Journal of the Royal Society, Interface |
29618526 |
J R Soc Interface |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29618526 |
| Causal Structure Learning via Temporal Markov Networks. |
Barnard A, Page D |
Proceedings of machine learning research |
40259924 |
Proc Mach Learn Res |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/40259924 |
| Efficient Relative Attribute Learning using Graph Neural Networks. |
Meng Z, Adluru N, Kim HJ, Fung G, Singh V |
Computer vision - ECCV ... : ... European Conference on Computer Vision : proceedings. European Conference on Computer Vision |
32318687 |
Comput Vis ECCV |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32318687 |
| Dimension constraints improve hypothesis testing for large-scale, graph-associated, brain-image data. |
Vo T, Mishra A, Ithapu V, Singh V, Newton MA |
Biostatistics (Oxford, England) |
33616173 |
Biostatistics |
2022 Jul 18 |
https://www.ncbi.nlm.nih.gov/pubmed/33616173 |
| Generating Accurate Pseudo-labels in Semi-Supervised Learning and Avoiding Overconfident Predictions via Hermite Polynomial Activations. |
Lokhande VS, Tasneeyapant S, Venkatesh A, Ravi SN, Singh V |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
33462534 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/33462534 |
| Associations Between Positron Emission Tomography Amyloid Pathology and Diffusion Tensor Imaging Brain Connectivity in Pre-Clinical Alzheimer's Disease. |
Hwang SJ, Adluru N, Kim WH, Johnson SC, Bendlin BB, Singh V |
Brain connectivity |
30255713 |
Brain Connect |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30255713 |
| Trendy: segmented regression analysis of expression dynamics in high-throughput ordered profiling experiments. |
Bacher R, Leng N, Chu LF, Ni Z, Thomson JA, Kendziorski C, Stewart R |
BMC bioinformatics |
30326833 |
BMC Bioinformatics |
2018 Oct 16 |
https://www.ncbi.nlm.nih.gov/pubmed/30326833 |
| Privacy-Preserving Collaborative Prediction using Random Forests. |
Giacomelli I, Jha S, Kleiman R, Page D, Yoon K |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
31258977 |
AMIA Jt Summits Transl Sci Proc |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31258977 |
| Predicting kinase inhibitors using bioactivity matrix derived informer sets. |
Zhang H, Ericksen SS, Lee CP, Ananiev GE, Wlodarchak N, Yu P, Mitchell JC, Gitter A, Wright SJ, Hoffmann FM, Wildman SA, Newton MA |
PLoS computational biology |
31381559 |
PLoS Comput Biol |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/31381559 |
| Design and computational analysis of single-cell RNA-sequencing experiments. |
Bacher R, Kendziorski C |
Genome biology |
27052890 |
Genome Biol |
2016 Apr 7 |
https://www.ncbi.nlm.nih.gov/pubmed/27052890 |
| ExpertBayes: Automatically refining manually built Bayesian networks. |
Almeida E, Ferreira P, Vinhoza T, Dutra I, Li J, Wu Y, Burnside E |
Proceedings of the ... International Conference on Machine Learning and Applications. International Conference on Machine Learning and Applications |
27066596 |
Proc Int Conf Mach Learn Appl |
2014 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27066596 |
| A Screening Rule for ℓ(1)-Regularized Ising Model Estimation. |
Kuang Z, Geng S, Page D |
Advances in neural information processing systems |
29983538 |
Adv Neural Inf Process Syst |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29983538 |
| atSNPInfrastructure, a case study for searching billions of records while providing significant cost savings over cloud providers. |
Harrison C, Keleş S, Hudson R, Shin S, Dutra I |
IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum : [proceedings]. IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum |
30349760 |
IEEE Int Symp Parallel Distrib Process Workshops Phd Forum |
2018 May |
https://www.ncbi.nlm.nih.gov/pubmed/30349760 |
| Practical Model Selection for Prospective Virtual Screening. |
Liu S, Alnammi M, Ericksen SS, Voter AF, Ananiev GE, Keck JL, Hoffmann FM, Wildman SA, Gitter A |
Journal of chemical information and modeling |
30500183 |
J Chem Inf Model |
2019 Jan 28 |
https://www.ncbi.nlm.nih.gov/pubmed/30500183 |
| Linkage of the ACR National Mammography Database to the Network of State Cancer Registries: Proof of Concept Evaluation by the ACR National Mammography Database Committee. |
Zuley ML, Nishikawa RM, Lee CS, Burnside E, Rosenberg R, Sickles EA, Berg W, Leung J, Harvey J, Sengupta D, Gur D |
Journal of the American College of Radiology : JACR |
30100161 |
J Am Coll Radiol |
2019 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/30100161 |
| atSNP Search: a web resource for statistically evaluating influence of human genetic variation on transcription factor binding. |
Shin S, Hudson R, Harrison C, Craven M, Keleş S |
Bioinformatics (Oxford, England) |
30534948 |
Bioinformatics |
2019 Aug 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30534948 |
| External validation of a publicly available computer assisted diagnostic tool for mammographic mass lesions with two high prevalence research datasets. |
Benndorf M, Burnside ES, Herda C, Langer M, Kotter E |
Medical physics |
26233224 |
Med Phys |
2015 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/26233224 |
| Subclonal diversity arises early even in small colorectal tumours and contributes to differential growth fates. |
Sievers CK, Zou LS, Pickhardt PJ, Matkowskyj KA, Albrecht DM, Clipson L, Bacher JW, Pooler BD, Moawad FJ, Cash BD, Reichelderfer M, Vo TN, Newton MA, Larget BR, Halberg RB |
Gut |
27609830 |
Gut |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/27609830 |
| SCnorm: robust normalization of single-cell RNA-seq data. |
Bacher R, Chu LF, Leng N, Gasch AP, Thomson JA, Stewart RM, Newton M, Kendziorski C |
Nature methods |
28418000 |
Nat Methods |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28418000 |
| Structure-Leveraged Methods in Breast Cancer Risk Prediction. |
Fan J, Wu Y, Yuan M, Page D, Liu J, Ong IM, Peissig P, Burnside E |
Journal of machine learning research : JMLR |
28559747 |
J Mach Learn Res |
2016 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/28559747 |
| Baseline Regularization for Computational Drug Repositioning with Longitudinal Observational Data. |
Kuang Z, Thomson J, Caldwell M, Peissig P, Stewart R, Page D |
IJCAI : proceedings of the conference |
28392671 |
IJCAI (U S) |
2016 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28392671 |
| Coupled Harmonic Bases for Longitudinal Characterization of Brain Networks. |
Hwang SJ, Adluru N, Collins MD, Ravi SN, Bendlin BB, Johnson SC, Singh V |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
27812274 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2016 Jun-Jul |
https://www.ncbi.nlm.nih.gov/pubmed/27812274 |
| Improving breast cancer risk prediction by using demographic risk factors, abnormality features on mammograms and genetic variants. |
Feld SI, Woo KM, Alexandridis R, Wu Y, Liu J, Peissig P, Onitilo AA, Cox J, Page CD, Burnside ES |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
30815167 |
AMIA Annu Symp Proc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30815167 |
| A Probabilistic Model to Support Radiologists' Classification Decisions in Mammography Practice. |
Zeng J, Gimenez F, Burnside ES, Rubin DL, Shachter R |
Medical decision making : an international journal of the Society for Medical Decision Making |
30819048 |
Med Decis Making |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30819048 |
| Sex-specific deficits in neurite density and white matter integrity are associated with targeted disruption of exon 2 of the Disc1 gene in the rat. |
Barnett BR, Torres-Velázquez M, Yi SY, Rowley PA, Sawin EA, Rubinstein CD, Krentz K, Anderson JM, Bakshi VP, Yu JJ |
Translational psychiatry |
30745562 |
Transl Psychiatry |
2019 Feb 11 |
https://www.ncbi.nlm.nih.gov/pubmed/30745562 |
| Automated and Robust Quantification of Colocalization in Dual-Color Fluorescence Microscopy: A Nonparametric Statistical Approach. |
Shulei Wang, Arena ET, Eliceiri KW, Ming Yuan |
IEEE transactions on image processing : a publication of the IEEE Signal Processing Society |
29053465 |
IEEE Trans Image Process |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29053465 |
| An empirical Bayes test for allelic-imbalance detection in ChIP-seq. |
Zhang Q, Keles S |
Biostatistics (Oxford, England) |
29126153 |
Biostatistics |
2018 Oct 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29126153 |
| Genetic Drivers of Pancreatic Islet Function. |
Keller MP, Gatti DM, Schueler KL, Rabaglia ME, Stapleton DS, Simecek P, Vincent M, Allen S, Broman AT, Bacher R, Kendziorski C, Broman KW, Yandell BS, Churchill GA, Attie AD |
Genetics |
29567659 |
Genetics |
2018 May |
https://www.ncbi.nlm.nih.gov/pubmed/29567659 |
| Online Graph Completion: Multivariate Signal Recovery in Computer Vision. |
Kim WH, Jalal M, Hwang S, Johnson SC, Singh V |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
29416294 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29416294 |
| Riemannian Nonlinear Mixed Effects Models: Analyzing Longitudinal Deformations in Neuroimaging. |
Kim HJ, Adluru N, Suri H, Vemuri BC, Johnson SC, Singh V |
Proceedings. IEEE Computer Society Conference on Computer Vision and Pattern Recognition |
29430166 |
Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/29430166 |
| Utility of BI-RADS Assessment Category 4 Subdivisions for Screening Breast MRI. |
Strigel RM, Burnside ES, Elezaby M, Fowler AM, Kelcz F, Salkowski LR, DeMartini WB |
AJR. American journal of roentgenology |
28792802 |
AJR Am J Roentgenol |
2017 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28792802 |
| Development of an online, publicly accessible naive Bayesian decision support tool for mammographic mass lesions based on the American College of Radiology (ACR) BI-RADS lexicon. |
Benndorf M, Kotter E, Langer M, Herda C, Wu Y, Burnside ES |
European radiology |
25576230 |
Eur Radiol |
2015 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/25576230 |
| Discriminatory power of common genetic variants in personalized breast cancer diagnosis. |
Wu Y, Abbey CK, Liu J, Ong I, Peissig P, Onitilo AA, Fan J, Yuan M, Burnside ES |
Proceedings of SPIE--the International Society for Optical Engineering |
27279675 |
Proc SPIE Int Soc Opt Eng |
2016 Feb 27 |
https://www.ncbi.nlm.nih.gov/pubmed/27279675 |
| Single-cell RNA-seq reveals novel regulators of human embryonic stem cell differentiation to definitive endoderm. |
Chu LF, Leng N, Zhang J, Hou Z, Mamott D, Vereide DT, Choi J, Kendziorski C, Stewart R, Thomson JA |
Genome biology |
27534536 |
Genome Biol |
2016 Aug 17 |
https://www.ncbi.nlm.nih.gov/pubmed/27534536 |
| Prediction of clinical phenotypes in invasive breast carcinomas from the integration of radiomics and genomics data. |
Guo W, Li H, Zhu Y, Lan L, Yang S, Drukker K, Morris E, Burnside E, Whitman G, Giger ML, Ji Y, Tcga Breast Phenotype Research Group |
Journal of medical imaging (Bellingham, Wash.) |
26835491 |
J Med Imaging (Bellingham) |
2015 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/26835491 |
| Genome-wide alterations in hippocampal 5-hydroxymethylcytosine links plasticity genes to acute stress. |
Li S, Papale LA, Zhang Q, Madrid A, Chen L, Chopra P, Keleş S, Jin P, Alisch RS |
Neurobiology of disease |
26598390 |
Neurobiol Dis |
2016 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/26598390 |
| Developing a clinical utility framework to evaluate prediction models in radiogenomics. |
Wu Y, Liu J, Del Rio AM, Page DC, Alagoz O, Peissig P, Onitilo AA, Burnside ES |
Proceedings of SPIE--the International Society for Optical Engineering |
27095854 |
Proc SPIE Int Soc Opt Eng |
2015 Feb 21 |
https://www.ncbi.nlm.nih.gov/pubmed/27095854 |
| Multi-resolution statistical analysis of brain connectivity graphs in preclinical Alzheimer's disease. |
Kim WH, Adluru N, Chung MK, Okonkwo OC, Johnson SC, B Bendlin B, Singh V |
NeuroImage |
26025289 |
Neuroimage |
2015 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/26025289 |
| Backward multiple imputation estimation of the conditional lifetime expectancy function with application to censored human longevity data. |
Kong J, Klein BE, Klein R, Wahba G |
Proceedings of the National Academy of Sciences of the United States of America |
26371300 |
Proc Natl Acad Sci U S A |
2015 Sep 29 |
https://www.ncbi.nlm.nih.gov/pubmed/26371300 |
| Performing Group Difference Testing on Graph Structured Data From GANs: Analysis and Applications in Neuroimaging. |
Dinh TQ, Xiong Y, Huang Z, Vo T, Mishra A, Kim WH, Ravi SN, Singh V |
IEEE transactions on pattern analysis and machine intelligence |
32763848 |
IEEE Trans Pattern Anal Mach Intell |
2022 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/32763848 |
| Predicting malignancy from mammography findings and image-guided core biopsies. |
Ferreira P, Fonseca NA, Dutra I, Woods R, Burnside E |
International journal of data mining and bioinformatics |
26333262 |
Int J Data Min Bioinform |
2015 |
https://www.ncbi.nlm.nih.gov/pubmed/26333262 |
| Automated minute scale RNA-seq of pluripotent stem cell differentiation reveals early divergence of human and mouse gene expression kinetics. |
Barry C, Schmitz MT, Argus C, Bolin JM, Probasco MD, Leng N, Duffin BM, Steill J, Swanson S, McIntosh BE, Stewart R, Kendziorski C, Thomson JA, Bacher R |
PLoS computational biology |
31815944 |
PLoS Comput Biol |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/31815944 |
| Genetic and environmental influences of variation in diffusion MRI measures of white matter microstructure. |
Luo Z, Adluru N, Dean DC 3rd, Alexander AL, Goldsmith HH |
Brain structure & function |
34585302 |
Brain Struct Funct |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/34585302 |
| PRAM: a novel pooling approach for discovering intergenic transcripts from large-scale RNA sequencing experiments. |
Liu P, Soukup AA, Bresnick EH, Dewey CN, Keleş S |
Genome research |
32958497 |
Genome Res |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/32958497 |
| Biomedical Literature Mining for Repurposing Laboratory Tests. |
Kuusisto F, Kleiman R, Weiss J |
Methods in molecular biology (Clifton, N.J.) |
35713860 |
Methods Mol Biol |
2022 |
https://www.ncbi.nlm.nih.gov/pubmed/35713860 |
| Nyströmformer: A Nystöm-based Algorithm for Approximating Self-Attention. |
Xiong Y, Zeng Z, Chakraborty R, Tan M, Fung G, Li Y, Singh V |
Proceedings of the ... AAAI Conference on Artificial Intelligence. AAAI Conference on Artificial Intelligence |
34745767 |
Proc AAAI Conf Artif Intell |
2021 |
https://www.ncbi.nlm.nih.gov/pubmed/34745767 |
| Gene by environment interaction mouse model reveals a functional role for 5-hydroxymethylcytosine in neurodevelopmental disorders. |
Papale LA, Madrid A, Zhang Q, Chen K, Sak L, Keleş S, Alisch RS |
Genome research |
34949667 |
Genome Res |
2022 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/34949667 |
| DUAL-GLOW: Conditional Flow-Based Generative Model for Modality Transfer. |
Sun H, Mehta R, Zhou HH, Huang Z, Johnson SC, Prabhakaran V, Singh V |
Proceedings. IEEE International Conference on Computer Vision |
35125977 |
Proc IEEE Int Conf Comput Vis |
2019 Oct-Nov |
https://www.ncbi.nlm.nih.gov/pubmed/35125977 |
| Evaluating Scalable Supervised Learning for Synthesize-on-Demand Chemical Libraries. |
Alnammi M, Liu S, Ericksen SS, Ananiev GE, Voter AF, Guo S, Keck JL, Hoffmann FM, Wildman SA, Gitter A |
Journal of chemical information and modeling |
37625010 |
J Chem Inf Model |
2023 Sep 11 |
https://www.ncbi.nlm.nih.gov/pubmed/37625010 |
| Mobile Monitoring of Traumatic Brain Injury in Older Adults: Challenges and Opportunities. |
Irimia A, Wei S, Lu N, Moore CM, Kennedy DN |
Neuroinformatics |
28748392 |
Neuroinformatics |
2017 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/28748392 |
| THE TRAINING OF NEXT GENERATION DATA SCIENTISTS IN BIOMEDICINE. |
Garmire LX, Gliske S, Nguyen QC, Chen JH, Nemati S, VAN Horn JD, Moore JH, Shreffler C, Dunn M |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
27897014 |
Pac Symp Biocomput |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/27897014 |
| Imagining the "open" university: Sharing scholarship to improve research and education. |
McKiernan EC |
PLoS biology |
29065148 |
PLoS Biol |
2017 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/29065148 |
| Objective risk stratification of prostate cancer using machine learning and radiomics applied to multiparametric magnetic resonance images. |
Varghese B, Chen F, Hwang D, Palmer SL, De Castro Abreu AL, Ukimura O, Aron M, Aron M, Gill I, Duddalwar V, Pandey G |
Scientific reports |
30733585 |
Sci Rep |
2019 Feb 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30733585 |
| Research Themes and Trends in Ten Top-Ranked Nephrology Journals: A Text Mining Analysis. |
Zengul FD, Lee T, Delen D, Almehmi A, Ivankova NV, Mehta T, Topuz K |
American journal of nephrology |
31838480 |
Am J Nephrol |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/31838480 |
| Democratizing data science through data science training. |
Van Horn JD, Fierro L, Kamdar J, Gordon J, Stewart C, Bhattrai A, Abe S, Lei X, O'Driscoll C, Sinha A, Jain P, Burns G, Lerman K, Ambite JL |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
29218890 |
Pac Symp Biocomput |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29218890 |
| BD2K Training Coordinating Center's ERuDIte: the Educational Resource Discovery Index for Data Science. |
Ambite JL, Fierro L, Gordon J, Burns GA, Geigl F, Lerman K, Van Horn JD |
IEEE transactions on emerging topics in computing |
35548703 |
IEEE Trans Emerg Top Comput |
2021 Jan-Mar |
https://www.ncbi.nlm.nih.gov/pubmed/35548703 |
| Ultradeep sequencing differentiates patterns of skin clonal mutations associated with sun-exposure status and skin cancer burden. |
Wei L, Christensen SR, Fitzgerald ME, Graham J, Hutson ND, Zhang C, Huang Z, Hu Q, Zhan F, Xie J, Zhang J, Liu S, Remenyik E, Gellen E, Colegio OR, Bax M, Xu J, Lin H, Huss WJ, Foster BA, Paragh G |
Science advances |
33523857 |
Sci Adv |
2021 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33523857 |
| The principles of tomorrow's university. |
Katz DS, Allen G, Barba LA, Berg DR, Bik H, Boettiger C, Borgman CL, Brown CT, Buck S, Burd R, de Waard A, Eve MP, Granger BE, Greenberg J, Howe A, Howe B, Khanna M, Killeen TL, Mayernik M, McKiernan E, Mentzel C, Merchant N, Niemeyer KE, Noren L, Nusser SM, Reed DA, Seidel E, Smith M, Spies JR, Turk M, Van Horn JD, Walsh J |
F1000Research |
30687499 |
F1000Res |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30687499 |
| Opinion: Big data biomedicine offers big higher education opportunities. |
Van Horn JD |
Proceedings of the National Academy of Sciences of the United States of America |
27274038 |
Proc Natl Acad Sci U S A |
2016 Jun 7 |
https://www.ncbi.nlm.nih.gov/pubmed/27274038 |
| Bridging the Brain and Data Sciences. |
Van Horn JD |
Big data |
33211552 |
Big Data |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/33211552 |
| The Human Phenotype Ontology in 2021. |
Köhler S, Gargano M, Matentzoglu N, Carmody LC, Lewis-Smith D, Vasilevsky NA, Danis D, Balagura G, Baynam G, Brower AM, Callahan TJ, Chute CG, Est JL, Galer PD, Ganesan S, Griese M, Haimel M, Pazmandi J, Hanauer M, Harris NL, Hartnett MJ, Hastreiter M, Hauck F, He Y, Jeske T, Kearney H, Kindle G, Klein C, Knoflach K, Krause R, Lagorce D, McMurry JA, Miller JA, Munoz-Torres MC, Peters RL, Rapp CK, Rath AM, Rind SA, Rosenberg AZ, Segal MM, Seidel MG, Smedley D, Talmy T, Thomas Y, Wiafe SA, Xian J, Yüksel Z, Helbig I, Mungall CJ, Haendel MA, Robinson PN |
Nucleic acids research |
33264411 |
Nucleic Acids Res |
2021 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/33264411 |
| Expansion of the Human Phenotype Ontology (HPO) knowledge base and resources. |
Köhler S, Carmody L, Vasilevsky N, Jacobsen JOB, Danis D, Gourdine JP, Gargano M, Harris NL, Matentzoglu N, McMurry JA, Osumi-Sutherland D, Cipriani V, Balhoff JP, Conlin T, Blau H, Baynam G, Palmer R, Gratian D, Dawkins H, Segal M, Jansen AC, Muaz A, Chang WH, Bergerson J, Laulederkind SJF, Yüksel Z, Beltran S, Freeman AF, Sergouniotis PI, Durkin D, Storm AL, Hanauer M, Brudno M, Bello SM, Sincan M, Rageth K, Wheeler MT, Oegema R, Lourghi H, Della Rocca MG, Thompson R, Castellanos F, Priest J, Cunningham-Rundles C, Hegde A, Lovering RC, Hajek C, Olry A, Notarangelo L, Similuk M, Zhang XA, Gómez-Andrés D, Lochmüller H, Dollfus H, Rosenzweig S, Marwaha S, Rath A, Sullivan K, Smith C, Milner JD, Leroux D, Boerkoel CF, Klion A, Carter MC, Groza T, Smedley D, Haendel MA, Mungall C, Robinson PN |
Nucleic acids research |
30476213 |
Nucleic Acids Res |
2019 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/30476213 |
| The GA4GH Phenopacket schema defines a computable representation of clinical data. |
Jacobsen JOB, Baudis M, Baynam GS, Beckmann JS, Beltran S, Buske OJ, Callahan TJ, Chute CG, Courtot M, Danis D, Elemento O, Essenwanger A, Freimuth RR, Gargano MA, Groza T, Hamosh A, Harris NL, Kaliyaperumal R, Lloyd KCK, Khalifa A, Krawitz PM, Köhler S, Laraway BJ, Lehväslaiho H, Matalonga L, McMurry JA, Metke-Jimenez A, Mungall CJ, Munoz-Torres MC, Ogishima S, Papakonstantinou A, Piscia D, Pontikos N, Queralt-Rosinach N, Roos M, Sass J, Schofield PN, Seelow D, Siapos A, Smedley D, Smith LD, Steinhaus R, Sundaramurthi JC, Swietlik EM, Thun S, Vasilevsky NA, Wagner AH, Warner JL, Weiland C, GAGH Phenopacket Modeling Consortium, Haendel MA, Robinson PN |
Nature biotechnology |
35705716 |
Nat Biotechnol |
2022 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/35705716 |
| Encoding Clinical Data with the Human Phenotype Ontology for Computational Differential Diagnostics. |
Köhler S, Øien NC, Buske OJ, Groza T, Jacobsen JOB, McNamara C, Vasilevsky N, Carmody LC, Gourdine JP, Gargano M, McMurry JA, Danis D, Mungall CJ, Smedley D, Haendel M, Robinson PN |
Current protocols in human genetics |
31479590 |
Curr Protoc Hum Genet |
2019 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/31479590 |
| Transforming the study of organisms: Phenomic data models and knowledge bases. |
Thessen AE, Walls RL, Vogt L, Singer J, Warren R, Buttigieg PL, Balhoff JP, Mungall CJ, McGuinness DL, Stucky BJ, Yoder MJ, Haendel MA |
PLoS computational biology |
33232313 |
PLoS Comput Biol |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/33232313 |
| The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species. |
Shefchek KA, Harris NL, Gargano M, Matentzoglu N, Unni D, Brush M, Keith D, Conlin T, Vasilevsky N, Zhang XA, Balhoff JP, Babb L, Bello SM, Blau H, Bradford Y, Carbon S, Carmody L, Chan LE, Cipriani V, Cuzick A, Della Rocca M, Dunn N, Essaid S, Fey P, Grove C, Gourdine JP, Hamosh A, Harris M, Helbig I, Hoatlin M, Joachimiak M, Jupp S, Lett KB, Lewis SE, McNamara C, Pendlington ZM, Pilgrim C, Putman T, Ravanmehr V, Reese J, Riggs E, Robb S, Roncaglia P, Seager J, Segerdell E, Similuk M, Storm AL, Thaxon C, Thessen A, Jacobsen JOB, McMurry JA, Groza T, Köhler S, Smedley D, Robinson PN, Mungall CJ, Haendel MA, Munoz-Torres MC, Osumi-Sutherland D |
Nucleic acids research |
31701156 |
Nucleic Acids Res |
2020 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/31701156 |
| Community Approaches for Integrating Environmental Exposures into Human Models of Disease. |
Thessen AE, Grondin CJ, Kulkarni RD, Brander S, Truong L, Vasilevsky NA, Callahan TJ, Chan LE, Westra B, Willis M, Rothenberg SE, Jarabek AM, Burgoon L, Korrick SA, Haendel MA |
Environmental health perspectives |
33369481 |
Environ Health Perspect |
2020 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/33369481 |
| The Human Phenotype Ontology in 2024: phenotypes around the world. |
Gargano MA, Matentzoglu N, Coleman B, Addo-Lartey EB, Anagnostopoulos AV, Anderton J, Avillach P, Bagley AM, Bakštein E, Balhoff JP, Baynam G, Bello SM, Berk M, Bertram H, Bishop S, Blau H, Bodenstein DF, Botas P, Boztug K, Čady J, Callahan TJ, Cameron R, Carbon SJ, Castellanos F, Caufield JH, Chan LE, Chute CG, Cruz-Rojo J, Dahan-Oliel N, Davids JR, de Dieuleveult M, de Souza V, de Vries BBA, de Vries E, DePaulo JR, Derfalvi B, Dhombres F, Diaz-Byrd C, Dingemans AJM, Donadille B, Duyzend M, Elfeky R, Essaid S, Fabrizzi C, Fico G, Firth HV, Freudenberg-Hua Y, Fullerton JM, Gabriel DL, Gilmour K, Giordano J, Goes FS, Moses RG, Green I, Griese M, Groza T, Gu W, Guthrie J, Gyori B, Hamosh A, Hanauer M, Hanušová K, He YO, Hegde H, Helbig I, Holasová K, Hoyt CT, Huang S, Hurwitz E, Jacobsen JOB, Jiang X, Joseph L, Keramatian K, King B, Knoflach K, Koolen DA, Kraus ML, Kroll C, Kusters M, Ladewig MS, Lagorce D, Lai MC, Lapunzina P, Laraway B, Lewis-Smith D, Li X, Lucano C, Majd M, Marazita ML, Martinez-Glez V, McHenry TH, McInnis MG, McMurry JA, Mihulová M, Millett CE, Mitchell PB, Moslerová V, Narutomi K, Nematollahi S, Nevado J, Nierenberg AA, Čajbiková NN, Nurnberger JI Jr, Ogishima S, Olson D, Ortiz A, Pachajoa H, Perez de Nanclares G, Peters A, Putman T, Rapp CK, Rath A, Reese J, Rekerle L, Roberts AM, Roy S, Sanders SJ, Schuetz C, Schulte EC, Schulze TG, Schwarz M, Scott K, Seelow D, Seitz B, Shen Y, Similuk MN, Simon ES, Singh B, Smedley D, Smith CL, Smolinsky JT, Sperry S, Stafford E, Stefancsik R, Steinhaus R, Strawbridge R, Sundaramurthi JC, Talapova P, Tenorio Castano JA, Tesner P, Thomas RH, Thurm A, Turnovec M, van Gijn ME, Vasilevsky NA, Vlčková M, Walden A, Wang K, Wapner R, Ware JS, Wiafe AA, Wiafe SA, Wiggins LD, Williams AE, Wu C, Wyrwoll MJ, Xiong H, Yalin N, Yamamoto Y, Yatham LN, Yocum AK, Young AH, Yüksel Z, Zandi PP, Zankl A, Zarante I, Zvolský M, Toro S, Carmody LC, Harris NL, Munoz-Torres MC, Danis D, Mungall CJ, Köhler S, Haendel MA, Robinson PN |
Nucleic acids research |
37953324 |
Nucleic Acids Res |
2024 Jan 5 |
https://www.ncbi.nlm.nih.gov/pubmed/37953324 |
| Precision Diagnosis Of Melanoma And Other Skin Lesions From Digital Images. |
Bhattacharya A, Young A, Wong A, Stalling S, Wei M, Hadley D |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
28815132 |
AMIA Jt Summits Transl Sci Proc |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28815132 |
| The Impact of COVID-19 on African American Communities in the United States. |
Cyrus E, Clarke R, Hadley D, Bursac Z, Trepka MJ, Dévieux JG, Bagci U, Furr-Holden D, Coudray M, Mariano Y, Kiplagat S, Noel I, Ravelo G, Paley M, Wagner EF |
Health equity |
33269331 |
Health Equity |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/33269331 |
| Opal: an implementation science tool for machine learning clinical decision support in anesthesia. |
Bishara A, Wong A, Wang L, Chopra M, Fan W, Lin A, Fong N, Palacharla A, Spinner J, Armstrong R, Pletcher MJ, Lituiev D, Hadley D, Butte A |
Journal of clinical monitoring and computing |
34837585 |
J Clin Monit Comput |
2022 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/34837585 |
| Predictive Models for Length of Stay and Discharge Disposition in Elective Spine Surgery: Development, Validation, and Comparison to the ACS NSQIP Risk Calculator. |
Arora A, Lituiev D, Jain D, Hadley D, Butte AJ, Berven S, Peterson TA |
Spine |
36398784 |
Spine (Phila Pa 1976) |
2023 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/36398784 |
| Are minor alleles more likely to be risk alleles? |
Kido T, Sikora-Wohlfeld W, Kawashima M, Kikuchi S, Kamatani N, Patwardhan A, Chen R, Sirota M, Kodama K, Hadley D, Butte AJ |
BMC medical genomics |
29351777 |
BMC Med Genomics |
2018 Jan 19 |
https://www.ncbi.nlm.nih.gov/pubmed/29351777 |
| A genome-wide association study identifies only two ancestry specific variants associated with spontaneous preterm birth. |
Rappoport N, Toung J, Hadley D, Wong RJ, Fujioka K, Reuter J, Abbott CW, Oh S, Hu D, Eng C, Huntsman S, Bodian DL, Niederhuber JE, Hong X, Zhang G, Sikora-Wohfeld W, Gignoux CR, Wang H, Oehlert J, Jelliffe-Pawlowski LL, Gould JB, Darmstadt GL, Wang X, Bustamante CD, Snyder MP, Ziv E, Patsopoulos NA, Muglia LJ, Burchard E, Shaw GM, O'Brodovich HM, Stevenson DK, Butte AJ, Sirota M |
Scientific reports |
29317701 |
Sci Rep |
2018 Jan 9 |
https://www.ncbi.nlm.nih.gov/pubmed/29317701 |
| Rare copy number variants in over 100,000 European ancestry subjects reveal multiple disease associations. |
Li YR, Glessner JT, Coe BP, Li J, Mohebnasab M, Chang X, Connolly J, Kao C, Wei Z, Bradfield J, Kim C, Hou C, Khan M, Mentch F, Qiu H, Bakay M, Cardinale C, Lemma M, Abrams D, Bridglall-Jhingoor A, Behr M, Harrison S, Otieno G, Thomas A, Wang F, Chiavacci R, Wu L, Hadley D, Goldmuntz E, Elia J, Maris J, Grundmeier R, Devoto M, Keating B, March M, Pellagrino R, Grant SFA, Sleiman PMA, Li M, Eichler EE, Hakonarson H |
Nature communications |
31937769 |
Nat Commun |
2020 Jan 14 |
https://www.ncbi.nlm.nih.gov/pubmed/31937769 |
| A review investigating the relationship between cannabis use and adolescent cognitive functioning. |
Cyrus E, Coudray MS, Kiplagat S, Mariano Y, Noel I, Galea JT, Hadley D, Dévieux JG, Wagner E |
Current opinion in psychology |
32818908 |
Curr Opin Psychol |
2021 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/32818908 |
| Machine Learning Prediction of Liver Allograft Utilization From Deceased Organ Donors Using the National Donor Management Goals Registry. |
Bishara AM, Lituiev DS, Adelmann D, Kothari RP, Malinoski DJ, Nudel JD, Sally MB, Hirose R, Hadley DD, Niemann CU |
Transplantation direct |
34604507 |
Transplant Direct |
2021 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/34604507 |
| An Ontology for Cardiothoracic Surgical Education and Clinical Data Analytics. |
Panahiazar M, Chern Y, Riojas R, Latif OS, Lokala U, Hadley D, Sheth A, Beygui RE |
Studies in health technology and informatics |
35612107 |
Stud Health Technol Inform |
2022 May 25 |
https://www.ncbi.nlm.nih.gov/pubmed/35612107 |
| The Early Growth Genetics (EGG) and EArly Genetics and Lifecourse Epidemiology (EAGLE) consortia: design, results and future prospects. |
Middeldorp CM, Felix JF, Mahajan A, EArly Genetics Lifecourse Epidemiology (EAGLE) consortium, Early Growth Genetics (EGG) consortium, McCarthy MI |
European journal of epidemiology |
30887376 |
Eur J Epidemiol |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30887376 |
| Data Analytics of Electronic Health Records to Enhance Care of Coronary Artery Disease in Younger Women with Avoiding Possible Delay in Treatment. |
Panahiazar M, Bishara AM, Chern Y, Alizadehsani R, Latif OS, Hadley D, Beygui RE |
Studies in health technology and informatics |
35673215 |
Stud Health Technol Inform |
2022 Jun 6 |
https://www.ncbi.nlm.nih.gov/pubmed/35673215 |
| Tracing diagnosis trajectories over millions of patients reveal an unexpected risk in schizophrenia. |
Paik H, Kan MJ, Rappoport N, Hadley D, Sirota M, Chen B, Manber U, Cho SB, Butte AJ |
Scientific data |
31615985 |
Sci Data |
2019 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/31615985 |
| Development and Validation of an Electronic Health Record-Based Machine Learning Model to Estimate Delirium Risk in Newly Hospitalized Patients Without Known Cognitive Impairment. |
Wong A, Young AT, Liang AS, Gonzales R, Douglas VC, Hadley D |
JAMA network open |
30646095 |
JAMA Netw Open |
2018 Aug 3 |
https://www.ncbi.nlm.nih.gov/pubmed/30646095 |
| Data Analytics of Electronic Medical Record to Study Racial Diversities in Cardiovascular Diagnosis and Treatment. |
Panahiazar M, Chern Y, Riojas R, Latif OS, Hadley D, Beygui RE |
Studies in health technology and informatics |
35612140 |
Stud Health Technol Inform |
2022 May 25 |
https://www.ncbi.nlm.nih.gov/pubmed/35612140 |
| WormBase 2017: molting into a new stage. |
Lee RYN, Howe KL, Harris TW, Arnaboldi V, Cain S, Chan J, Chen WJ, Davis P, Gao S, Grove C, Kishore R, Muller HM, Nakamura C, Nuin P, Paulini M, Raciti D, Rodgers F, Russell M, Schindelman G, Tuli MA, Van Auken K, Wang Q, Williams G, Wright A, Yook K, Berriman M, Kersey P, Schedl T, Stein L, Sternberg PW |
Nucleic acids research |
29069413 |
Nucleic Acids Res |
2018 Jan 4 |
https://www.ncbi.nlm.nih.gov/pubmed/29069413 |
| Using WormBase: A Genome Biology Resource for Caenorhabditis elegans and Related Nematodes. |
Grove C, Cain S, Chen WJ, Davis P, Harris T, Howe KL, Kishore R, Lee R, Paulini M, Raciti D, Tuli MA, Van Auken K, Williams G, WormBase Consortium |
Methods in molecular biology (Clifton, N.J.) |
29761466 |
Methods Mol Biol |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29761466 |
| Wearable microPosters. |
Lee J, Sternberg P |
microPublication biology |
32550402 |
MicroPubl Biol |
2019 Nov 26 |
https://www.ncbi.nlm.nih.gov/pubmed/32550402 |
| Micropublication: incentivizing community curation and placing unpublished data into the public domain. |
Raciti D, Yook K, Harris TW, Schedl T, Sternberg PW |
Database : the journal of biological databases and curation |
29688367 |
Database (Oxford) |
2018 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29688367 |
| Machine and deep learning approaches for cancer drug repurposing. |
Issa NT, Stathias V, Schürer S, Dakshanamurthy S |
Seminars in cancer biology |
31904426 |
Semin Cancer Biol |
2021 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/31904426 |
| Targeted degrader technologies as prospective SARS-CoV-2 therapies. |
Khurshid R, Schulz JM, Hu J, Snowden TS, Reynolds RC, Schürer SC |
Drug discovery today |
38029836 |
Drug Discov Today |
2024 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/38029836 |
| Cellular and molecular effects of PNCK, a non-canonical kinase target in renal cell carcinoma. |
Essegian DJ, Chavez V, Bustamante F, Schürer SC, Merchan JR |
iScience |
36465101 |
iScience |
2022 Dec 22 |
https://www.ncbi.nlm.nih.gov/pubmed/36465101 |
| Comprehensive Proteomics Metadata and Integrative Web Portals Facilitate Sharing and Integration of LINCS Multiomics Data. |
Vidović D, Shamsaei B, Schürer SC, Kogan P, Chojnacki S, Kouril M, Medvedovic M, Niu W, Azeloglu EU, Birtwistle MR, Chen Y, Chen T, Hansen J, Hu B, Iyengar R, Jayaraman G, Li H, Liu T, Sobie EA, Xiong Y, Berberich MJ, Bradshaw G, Chung M, Everley RA, Gaudio B, Hafner M, Kalocsay M, Mills CE, Nariya MK, Sorger PK, Subramanian K, Victor C, Banuelos M, Dardov V, Holewinski R, Manalo DM, Mandefro B, Matlock AD, Ornelas L, Sareen D, Svendsen CN, Vaibhav V, Van Eyk JE, Venkatraman V, Finkbiener S, Fraenkel E, Rothstein J, Thompson L, Asiedu J, Carr SA, Christianson KE, Davison D, Dele-Oni DO, DeRuff KC, Egri SB, Jacome ASV, Jaffe JD, Lam D, Litichevskiy L, Lu X, Mullahoo J, Officer A, Papanastasiou M, Peckner R, Toder C, Blanchard J, Bula M, Ko T, Tsai LH, Young JZ, Sharma V, Pillai A, Meller J, MacCoss MJ |
Molecular & cellular proteomics : MCP |
40089066 |
Mol Cell Proteomics |
2025 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/40089066 |
| The Clinical Kinase Index: A Method to Prioritize Understudied Kinases as Drug Targets for the Treatment of Cancer. |
Essegian D, Khurana R, Stathias V, Schürer SC |
Cell reports. Medicine |
33205077 |
Cell Rep Med |
2020 Oct 20 |
https://www.ncbi.nlm.nih.gov/pubmed/33205077 |
| Kinome-Wide Virtual Screening by Multi-Task Deep Learning. |
Hu J, Allen BK, Stathias V, Ayad NG, Schürer SC |
International journal of molecular sciences |
38473785 |
Int J Mol Sci |
2024 Feb 22 |
https://www.ncbi.nlm.nih.gov/pubmed/38473785 |
| Best practices for managing and disseminating resources and outreach and evaluating the impact of the IDG Consortium. |
Vidović D, Waller A, Holmes J, Sklar LA, Schürer SC |
Drug discovery today |
38508231 |
Drug Discov Today |
2024 May |
https://www.ncbi.nlm.nih.gov/pubmed/38508231 |
| How to Develop a Drug Target Ontology: KNowledge Acquisition and Representation Methodology (KNARM). |
Küçük McGinty H, Visser U, Schürer S |
Methods in molecular biology (Clifton, N.J.) |
30848456 |
Methods Mol Biol |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30848456 |
| LINCS Data Portal 2.0: next generation access point for perturbation-response signatures. |
Stathias V, Turner J, Koleti A, Vidovic D, Cooper D, Fazel-Najafabadi M, Pilarczyk M, Terryn R, Chung C, Umeano A, Clarke DJB, Lachmann A, Evangelista JE, Ma'ayan A, Medvedovic M, Schürer SC |
Nucleic acids research |
31701147 |
Nucleic Acids Res |
2020 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/31701147 |
| Benchmarking the Builders: A Comparative Analysis of PRosettaC and AlphaFold3 for Predicting PROTAC Ternary Complexes. |
Schulz JM, Schürer SI, Reynolds RC, Schürer SC |
Research square |
40630526 |
Res Sq |
2025 Jul 2 |
https://www.ncbi.nlm.nih.gov/pubmed/40630526 |
| Corrigendum to "Comprehensive Proteomics Metadata and Integrative Web Portals Facilitate Sharing and Integration of LINCS Multiomics Data". |
Vidović D, Shamsaei B, Schürer SC, Kogan P, Chojnacki S, Kouril M, Medvedovic M, Niu W, Azeloglu EU, Birtwistle MR, Chen Y, Chen T, Hansen J, Hu B, Iyengar R, Jayaraman G, Li H, Liu T, Sobie EA, Xiong Y, Berberich MJ, Bradshaw G, Chung M, Everley RA, Gaudio B, Hafner M, Kalocsay M, Mills CE, Nariya MK, Sorger PK, Subramanian K, Victor C, Banuelos M, Dardov V, Holewinski R, Manalo DM, Mandefro B, Matlock AD, Ornelas L, Sareen D, Svendsen CN, Vaibhav V, Van Eyk JE, Venkatraman V, Finkbiener S, Fraenkel E, Rothstein J, Thompson L, Asiedu J, Carr SA, Christianson KE, Davison D, Dele-Oni DO, DeRuff KC, Egri SB, Vaca Jacome AS, Jaffe JD, Lam D, Litichevskiy L, Lu X, Mullahoo J, Officer A, Papanastasiou M, Peckner R, Toder C, Blanchard J, Bula M, Ko T, Tsai LH, Young JZ, Sharma V, Meller J, MacCoss MJ |
Molecular & cellular proteomics : MCP |
40783300 |
Mol Cell Proteomics |
2025 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/40783300 |
| PRosettaC outperforms AlphaFold3 for modeling PROTAC ternary complexes. |
Schulz JM, Schürer SI, Reynolds RC, Schürer SC |
Scientific reports |
41152377 |
Sci Rep |
2025 Oct 28 |
https://www.ncbi.nlm.nih.gov/pubmed/41152377 |
| OSCI: standardized stem cell ontology representation and use cases for stem cell investigation. |
He Y, Duncan WD, Cooper DJ, Hansen J, Iyengar R, Ong E, Walker K, Tibi O, Smith S, Serra LM, Zheng J, Sarntivijai S, Schürer S, O'Shea KS, Diehl AD |
BMC bioinformatics |
31272389 |
BMC Bioinformatics |
2019 Apr 25 |
https://www.ncbi.nlm.nih.gov/pubmed/31272389 |
| Improving the Utility of the Tox21 Dataset by Deep Metadata Annotations and Constructing Reusable Benchmarked Chemical Reference Signatures. |
Cooper DJ, Schürer S |
Molecules (Basel, Switzerland) |
31018579 |
Molecules |
2019 Apr 23 |
https://www.ncbi.nlm.nih.gov/pubmed/31018579 |
| AI-Assisted chemical probe discovery for the understudied Calcium-Calmodulin Dependent Kinase, PNCK. |
Essegian DJ, Chavez V, Khurshid R, Merchan JR, Schürer SC |
PLoS computational biology |
37235579 |
PLoS Comput Biol |
2023 May |
https://www.ncbi.nlm.nih.gov/pubmed/37235579 |
| An extension of the BioAssay Ontology to include pharmacokinetic/pharmacodynamic terminology for the enrichment of scientific workflows. |
Penn S, Lomax J, Karlsson A, Antonucci V, Zachmann CD, Kanza S, Schurer S, Turner J |
Journal of biomedical semantics |
37568227 |
J Biomed Semantics |
2023 Aug 11 |
https://www.ncbi.nlm.nih.gov/pubmed/37568227 |
| A Model Information Management Plan for Molecular Pathology Sequence Data Using Standards: From Sequencer to Electronic Health Record. |
Campbell WS, Carter AB, Cushman-Vokoun AM, Greiner TC, Dash RC, Routbort M, de Baca ME, Campbell JR |
The Journal of molecular diagnostics : JMD |
30797065 |
J Mol Diagn |
2019 May |
https://www.ncbi.nlm.nih.gov/pubmed/30797065 |
| An Extended SNOMED CT Concept Model for Observations in Molecular Genetics. |
Campbell JR, Talmon G, Cushman-Vokoun A, Karlsson D, Scott Campbell W |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
28269830 |
AMIA Annu Symp Proc |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/28269830 |
| A computable pathology report for precision medicine: extending an observables ontology unifying SNOMED CT and LOINC. |
Campbell WS, Karlsson D, Vreeman DJ, Lazenby AJ, Talmon GA, Campbell JR |
Journal of the American Medical Informatics Association : JAMIA |
29024958 |
J Am Med Inform Assoc |
2018 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29024958 |
| Exploration of PCORnet Data Resources for Assessing Use of Molecular-Guided Cancer Treatment. |
Carnahan RM, Waitman LR, Charlton ME, Schroeder MC, Bossler AD, Campbell WS, Campbell JR, McDowell BD, Smith NC, Gryzlak BM, Chrischilles EA |
JCO clinical cancer informatics |
32795185 |
JCO Clin Cancer Inform |
2020 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/32795185 |
| Assessing the practice of biomedical ontology evaluation: Gaps and opportunities. |
Amith M, He Z, Bian J, Lossio-Ventura JA, Tao C |
Journal of biomedical informatics |
29462669 |
J Biomed Inform |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29462669 |
| Architecture and usability of OntoKeeper, an ontology evaluation tool. |
Amith M, Manion F, Liang C, Harris M, Wang D, He Y, Tao C |
BMC medical informatics and decision making |
31391056 |
BMC Med Inform Decis Mak |
2019 Aug 8 |
https://www.ncbi.nlm.nih.gov/pubmed/31391056 |
| Regulations and Norms for Reuse of Residual Clinical Biospecimens and Health Data. |
Umberfield EE, Kardia SLR, Jiang Y, Thomer AK, Harris MR |
Western journal of nursing research |
34238076 |
West J Nurs Res |
2022 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/34238076 |
| Integrating a conceptual consent permission model from the informed consent ontology for software application execution. |
Amith MT, He Y, Smith E, Harris M, Manion F, Tao C |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
40502263 |
AMIA Jt Summits Transl Sci Proc |
2025 |
https://www.ncbi.nlm.nih.gov/pubmed/40502263 |
| Lessons Learned for Identifying and Annotating Permissions in Clinical Consent Forms. |
Umberfield EE, Jiang Y, Fenton SH, Stansbury C, Ford K, Crist K, Kardia SLR, Thomer AK, Harris MR |
Applied clinical informatics |
34161986 |
Appl Clin Inform |
2021 May |
https://www.ncbi.nlm.nih.gov/pubmed/34161986 |
| Gene fingerprint model for literature based detection of the associations among complex diseases: a case study of COPD. |
Chen G, Jia Y, Zhu L, Li P, Zhang L, Tao C, Jim Zheng W |
BMC medical informatics and decision making |
30700303 |
BMC Med Inform Decis Mak |
2019 Jan 31 |
https://www.ncbi.nlm.nih.gov/pubmed/30700303 |
| Expressing Biomedical Ontologies in Natural Language for Expert Evaluation. |
Amith M, Manion FJ, Harris MR, Zhang Y, Xu H, Tao C |
Studies in health technology and informatics |
29295217 |
Stud Health Technol Inform |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29295217 |
| Machine learning-based donor permission extraction from informed consent documents. |
Zhang M, Sankaranarayanapillai M, Du J, Xiang Y, Manion FJ, Harris MR, Stansbury C, Pham HA, Tao C |
BMC bioinformatics |
38102593 |
BMC Bioinformatics |
2023 Dec 15 |
https://www.ncbi.nlm.nih.gov/pubmed/38102593 |
| Evaluating and Extending the Informed Consent Ontology for Representing Permissions from the Clinical Domain. |
Umberfield EE, Stansbury C, Ford K, Jiang Y, Kardia SLR, Thomer AK, Harris MR |
Applied ontology |
36312514 |
Appl Ontol |
2022 |
https://www.ncbi.nlm.nih.gov/pubmed/36312514 |
| Dead simple OWL design patterns. |
Osumi-Sutherland D, Courtot M, Balhoff JP, Mungall C |
Journal of biomedical semantics |
28583177 |
J Biomed Semantics |
2017 Jun 5 |
https://www.ncbi.nlm.nih.gov/pubmed/28583177 |
| Ontology Development Kit: a toolkit for building, maintaining and standardizing biomedical ontologies. |
Matentzoglu N, Goutte-Gattat D, Tan SZK, Balhoff JP, Carbon S, Caron AR, Duncan WD, Flack JE, Haendel M, Harris NL, Hogan WR, Hoyt CT, Jackson RC, Kim H, Kir H, Larralde M, McMurry JA, Overton JA, Peters B, Pilgrim C, Stefancsik R, Robb SM, Toro S, Vasilevsky NA, Walls R, Mungall CJ, Osumi-Sutherland D |
Database : the journal of biological databases and curation |
36208225 |
Database (Oxford) |
2022 Oct 8 |
https://www.ncbi.nlm.nih.gov/pubmed/36208225 |
| BioPortal: an open community resource for sharing, searching, and utilizing biomedical ontologies. |
Vendetti J, Harris NL, Dorf MV, Skrenchuk A, Caufield JH, Gonçalves RS, Graybeal JB, Hegde H, Redmond T, Mungall CJ, Musen MA |
Nucleic acids research |
40357648 |
Nucleic Acids Res |
2025 Jul 7 |
https://www.ncbi.nlm.nih.gov/pubmed/40357648 |
| MIRO: guidelines for minimum information for the reporting of an ontology. |
Matentzoglu N, Malone J, Mungall C, Stevens R |
Journal of biomedical semantics |
29347969 |
J Biomed Semantics |
2018 Jan 18 |
https://www.ncbi.nlm.nih.gov/pubmed/29347969 |
| ROBOT: A Tool for Automating Ontology Workflows. |
Jackson RC, Balhoff JP, Douglass E, Harris NL, Mungall CJ, Overton JA |
BMC bioinformatics |
31357927 |
BMC Bioinformatics |
2019 Jul 29 |
https://www.ncbi.nlm.nih.gov/pubmed/31357927 |
| The Human Phenotype Ontology in 2017. |
Köhler S, Vasilevsky NA, Engelstad M, Foster E, McMurry J, Aymé S, Baynam G, Bello SM, Boerkoel CF, Boycott KM, Brudno M, Buske OJ, Chinnery PF, Cipriani V, Connell LE, Dawkins HJ, DeMare LE, Devereau AD, de Vries BB, Firth HV, Freson K, Greene D, Hamosh A, Helbig I, Hum C, Jähn JA, James R, Krause R, F Laulederkind SJ, Lochmüller H, Lyon GJ, Ogishima S, Olry A, Ouwehand WH, Pontikos N, Rath A, Schaefer F, Scott RH, Segal M, Sergouniotis PI, Sever R, Smith CL, Straub V, Thompson R, Turner C, Turro E, Veltman MW, Vulliamy T, Yu J, von Ziegenweidt J, Zankl A, Züchner S, Zemojtel T, Jacobsen JO, Groza T, Smedley D, Mungall CJ, Haendel M, Robinson PN |
Nucleic acids research |
27899602 |
Nucleic Acids Res |
2017 Jan 4 |
https://www.ncbi.nlm.nih.gov/pubmed/27899602 |
| Distributed Cognition and Process Management Enabling Individualized Translational Research: The NIH Undiagnosed Diseases Program Experience. |
Links AE, Draper D, Lee E, Guzman J, Valivullah Z, Maduro V, Lebedev V, Didenko M, Tomlin G, Brudno M, Girdea M, Dumitriu S, Haendel MA, Mungall CJ, Smedley D, Hochheiser H, Arnold AM, Coessens B, Verhoeven S, Bone W, Adams D, Boerkoel CF, Gahl WA, Sincan M |
Frontiers in medicine |
27785453 |
Front Med (Lausanne) |
2016 |
https://www.ncbi.nlm.nih.gov/pubmed/27785453 |
| Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals. |
Lizio M, Harshbarger J, Abugessaisa I, Noguchi S, Kondo A, Severin J, Mungall C, Arenillas D, Mathelier A, Medvedeva YA, Lennartsson A, Drabløs F, Ramilowski JA, Rackham O, Gough J, Andersson R, Sandelin A, Ienasescu H, Ono H, Bono H, Hayashizaki Y, Carninci P, Forrest AR, Kasukawa T, Kawaji H |
Nucleic acids research |
27794045 |
Nucleic Acids Res |
2017 Jan 4 |
https://www.ncbi.nlm.nih.gov/pubmed/27794045 |
| A Logical Model of Homology for Comparative Biology. |
Mabee PM, Balhoff JP, Dahdul WM, Lapp H, Mungall CJ, Vision TJ |
Systematic biology |
31596473 |
Syst Biol |
2020 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31596473 |
| FAIRSCAPE: a Framework for FAIR and Reproducible Biomedical Analytics. |
Levinson MA, Niestroy J, Al Manir S, Fairchild K, Lake DE, Moorman JR, Clark T |
Neuroinformatics |
34264488 |
Neuroinformatics |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/34264488 |
| Uniform resolution of compact identifiers for biomedical data. |
Wimalaratne SM, Juty N, Kunze J, Janée G, McMurry JA, Beard N, Jimenez R, Grethe JS, Hermjakob H, Martone ME, Clark T |
Scientific data |
29737976 |
Sci Data |
2018 May 8 |
https://www.ncbi.nlm.nih.gov/pubmed/29737976 |
| A data citation roadmap for scholarly data repositories. |
Fenner M, Crosas M, Grethe JS, Kennedy D, Hermjakob H, Rocca-Serra P, Durand G, Berjon R, Karcher S, Martone M, Clark T |
Scientific data |
30971690 |
Sci Data |
2019 Apr 10 |
https://www.ncbi.nlm.nih.gov/pubmed/30971690 |
| Developing an FHIR-Based Computational Pipeline for Automatic Population of Case Report Forms for Colorectal Cancer Clinical Trials Using Electronic Health Records. |
Zong N, Wen A, Stone DJ, Sharma DK, Wang C, Yu Y, Liu H, Shi Q, Jiang G |
JCO clinical cancer informatics |
32134686 |
JCO Clin Cancer Inform |
2020 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/32134686 |
| Modeling cancer clinical trials using HL7 FHIR to support downstream applications: A case study with colorectal cancer data. |
Zong N, Stone DJ, Sharma DK, Wen A, Wang C, Yu Y, Huang M, Liu S, Liu H, Shi Q, Jiang G |
International journal of medical informatics |
33160272 |
Int J Med Inform |
2021 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/33160272 |
| An Interactive Visualization Tool for HL7 FHIR Specification Browsing and Profiling. |
Hong N, Wang K, Wu S, Shen F, Yao L, Jiang G |
Journal of healthcare informatics research |
31598581 |
J Healthc Inform Res |
2019 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/31598581 |
| Mining Hierarchies and Similarity Clusters from Value Set Repositories. |
Peterson KJ, Jiang G, Brue SM, Shen F, Liu H |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
29854206 |
AMIA Annu Symp Proc |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29854206 |
| Shiny FHIR: An Integrated Framework Leveraging Shiny R and HL7 FHIR to Empower Standards-Based Clinical Data Applications. |
Hong N, Prodduturi N, Wang C, Jiang G |
Studies in health technology and informatics |
29295223 |
Stud Health Technol Inform |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29295223 |
| A Consensus-Based Approach for Harmonizing the OHDSI Common Data Model with HL7 FHIR. |
Jiang G, Kiefer RC, Sharma DK, Prud'hommeaux E, Solbrig HR |
Studies in health technology and informatics |
29295227 |
Stud Health Technol Inform |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29295227 |
| Developing a FHIR-based EHR phenotyping framework: A case study for identification of patients with obesity and multiple comorbidities from discharge summaries. |
Hong N, Wen A, Stone DJ, Tsuji S, Kingsbury PR, Rasmussen LV, Pacheco JA, Adekkanattu P, Wang F, Luo Y, Pathak J, Liu H, Jiang G |
Journal of biomedical informatics |
31622801 |
J Biomed Inform |
2019 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/31622801 |
| ADEpedia-on-OHDSI: A next generation pharmacovigilance signal detection platform using the OHDSI common data model. |
Yu Y, Ruddy KJ, Hong N, Tsuji S, Wen A, Shah ND, Jiang G |
Journal of biomedical informatics |
30738946 |
J Biomed Inform |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30738946 |
| Developing a scalable FHIR-based clinical data normalization pipeline for standardizing and integrating unstructured and structured electronic health record data. |
Hong N, Wen A, Shen F, Sohn S, Wang C, Liu H, Jiang G |
JAMIA open |
32025655 |
JAMIA Open |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/32025655 |
| Exploring JSON-LD as an Executable Definition of FHIR RDF to Enable. |
Solbrig HR, Solbrig HR, Prud'hommeaux E, Booth D, Endle CM, Stone DJ, Jiang G |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
33936490 |
AMIA Annu Symp Proc |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/33936490 |
| CQL4NLP: Development and Integration of FHIR NLP Extensions in Clinical Quality Language for EHR-driven Phenotyping. |
Wen A, Rasmussen LV, Stone D, Liu S, Kiefer R, Adekkanattu P, Brandt PS, Pacheco JA, Luo Y, Wang F, Pathak J, Liu H, Jiang G |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
34457178 |
AMIA Jt Summits Transl Sci Proc |
2021 |
https://www.ncbi.nlm.nih.gov/pubmed/34457178 |
| Modeling and validating HL7 FHIR profiles using semantic web Shape Expressions (ShEx). |
Solbrig HR, Prud'hommeaux E, Grieve G, McKenzie L, Mandel JC, Sharma DK, Jiang G |
Journal of biomedical informatics |
28213144 |
J Biomed Inform |
2017 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/28213144 |
| Integrating Electronic Health Record Data into the ADEpedia-on-OHDSI Platform for Improved Signal Detection: A Case Study of Immune-related Adverse Events. |
Yu Y, Ruddy KJ, Wen A, Zong N, Tsuji S, Chen J, Shah ND, Jiang G |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
32477694 |
AMIA Jt Summits Transl Sci Proc |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32477694 |
| Standardizing Heterogeneous Annotation Corpora Using HL7 FHIR for Facilitating their Reuse and Integration in Clinical NLP. |
Hong N, Wen A, Mojarad MR, Sohn S, Liu H, Jiang G |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
30815098 |
AMIA Annu Symp Proc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30815098 |
| Evaluating the Portability of an NLP System for Processing Echocardiograms: A Retrospective, Multi-site Observational Study. |
Adekkanattu P, Jiang G, Luo Y, Kingsbury PR, Xu Z, Rasmussen LV, Pacheco JA, Kiefer RC, Stone DJ, Brandt PS, Yao L, Zhong Y, Deng Y, Wang F, Ancker JS, Campion TR, Pathak J |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
32308812 |
AMIA Annu Symp Proc |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/32308812 |
| Integrating Structured and Unstructured EHR Data Using an FHIR-based Type System: A Case Study with Medication Data. |
Hong N, Wen A, Shen F, Sohn S, Liu S, Liu H, Jiang G |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
29888045 |
AMIA Jt Summits Transl Sci Proc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29888045 |
| Preliminary exploration of survival analysis using the OHDSI common data model: a case study of intrahepatic cholangiocarcinoma. |
Hong N, Zhang N, Wu H, Lu S, Yu Y, Hou L, Lu Y, Liu H, Jiang G |
BMC medical informatics and decision making |
30526572 |
BMC Med Inform Decis Mak |
2018 Dec 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30526572 |
| Automated Population of an i2b2 Clinical Data Warehouse using FHIR. |
Solbrig HR, Hong N, Murphy SN, Jiang G |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
30815141 |
AMIA Annu Symp Proc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30815141 |
| Building Interoperable FHIR-Based Vocabulary Mapping Services: A Case Study of OHDSI Vocabularies and Mappings. |
Jiang G, Kiefer R, Prud'hommeaux E, Solbrig HR |
Studies in health technology and informatics |
29295408 |
Stud Health Technol Inform |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29295408 |
| D2Refine: A Platform for Clinical Research Study Data Element Harmonization and Standardization. |
Sharma DK, Solbrig HR, Prud'hommeaux E, Lee K, Pathak J, Jiang G |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
28815140 |
AMIA Jt Summits Transl Sci Proc |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/28815140 |
| Detecting and Filtering Immune-Related Adverse Events Signal Based on Text Mining and Observational Health Data Sciences and Informatics Common Data Model: Framework Development Study. |
Yu Y, Ruddy K, Mansfield A, Zong N, Wen A, Tsuji S, Huang M, Liu H, Shah N, Jiang G |
JMIR medical informatics |
32530430 |
JMIR Med Inform |
2020 Jun 12 |
https://www.ncbi.nlm.nih.gov/pubmed/32530430 |
| Developing a FHIR-based Framework for Phenome Wide Association Studies: A Case Study with A Pan-Cancer Cohort. |
Zong N, Sharma DK, Yu Y, Egan JB, Davila JI, Wang C, Jiang G |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
32477698 |
AMIA Jt Summits Transl Sci Proc |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32477698 |
| Integration of NLP2FHIR Representation with Deep Learning Models for EHR Phenotyping: A Pilot Study on Obesity Datasets. |
Liu S, Luo Y, Stone D, Zong N, Wen A, Yu Y, Rasmussen LV, Wang F, Pathak J, Liu H, Jiang G |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
34457156 |
AMIA Jt Summits Transl Sci Proc |
2021 |
https://www.ncbi.nlm.nih.gov/pubmed/34457156 |
| Structuring supplemental materials in support of reproducibility. |
Greenbaum D, Rozowsky J, Stodden V, Gerstein M |
Genome biology |
28381262 |
Genome Biol |
2017 Apr 5 |
https://www.ncbi.nlm.nih.gov/pubmed/28381262 |
| When Biology Gets Personal: Hidden Challenges of Privacy and Ethics in Biological Big Data. |
Gürsoy G, Harmanci A, Tang H, Ayday E, Brenner SE |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
30864339 |
Pac Symp Biocomput |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30864339 |
| Using blockchain to log genome dataset access: efficient storage and query. |
Gürsoy G, Bjornson R, Green ME, Gerstein M |
BMC medical genomics |
32693796 |
BMC Med Genomics |
2020 Jul 21 |
https://www.ncbi.nlm.nih.gov/pubmed/32693796 |
| Navigating ethical quandaries with the privacy dilemma of biomedical datasets. |
Gürsoy G, Doerr M, Wilbanks J, Wagner JK, Tang H, Brenner SE |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
31797643 |
Pac Symp Biocomput |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/31797643 |
| Quantification of private information leakage from phenotype-genotype data: linking attacks. |
Harmanci A, Gerstein M |
Nature methods |
26828419 |
Nat Methods |
2016 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/26828419 |
| Using Ethereum blockchain to store and query pharmacogenomics data via smart contracts. |
Gürsoy G, Brannon CM, Gerstein M |
BMC medical genomics |
32487214 |
BMC Med Genomics |
2020 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32487214 |
| Deep learning for healthcare: review, opportunities and challenges. |
Miotto R, Wang F, Wang S, Jiang X, Dudley JT |
Briefings in bioinformatics |
28481991 |
Brief Bioinform |
2018 Nov 27 |
https://www.ncbi.nlm.nih.gov/pubmed/28481991 |
| PRESAGE: PRivacy-preserving gEnetic testing via SoftwAre Guard Extension. |
Chen F, Wang C, Dai W, Jiang X, Mohammed N, Al Aziz MM, Sadat MN, Sahinalp C, Lauter K, Wang S |
BMC medical genomics |
28786365 |
BMC Med Genomics |
2017 Jul 26 |
https://www.ncbi.nlm.nih.gov/pubmed/28786365 |
| Real-time Protection of Genomic Data Sharing in Beacon Services. |
Bu D, Wang X, Tang H |
AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science |
29888039 |
AMIA Jt Summits Transl Sci Proc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29888039 |
| A Secure Alignment Algorithm for Mapping Short Reads to Human Genome. |
Zhao Y, Wang X, Tang H |
Journal of computational biology : a journal of computational molecular cell biology |
29741956 |
J Comput Biol |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29741956 |
| Privacy-preserving construction of generalized linear mixed model for biomedical computation. |
Zhu R, Jiang C, Wang X, Wang S, Zheng H, Tang H |
Bioinformatics (Oxford, England) |
32657380 |
Bioinformatics |
2020 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32657380 |
| A Full RNS Variant of Approximate Homomorphic Encryption. |
Cheon JH, Han K, Kim A, Kim M, Song Y |
Selected areas in cryptography : ... annual international workshop, SAC ... proceedings. SAC (Conference) |
33870337 |
Sel Areas Cryptogr |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/33870337 |
| Linking temporal medical records using non-protected health information data. |
Bonomi L, Jiang X |
Statistical methods in medical research |
29298592 |
Stat Methods Med Res |
2018 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/29298592 |
| Privacy-preserving biomedical data dissemination via a hybrid approach. |
Jiang Y, Wang C, Wu Z, Du X, Wang S |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
30815160 |
AMIA Annu Symp Proc |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/30815160 |
| SAFETY: Secure gwAs in Federated Environment through a hYbrid Solution. |
Sadat MN, Al Aziz MM, Mohammed N, Chen F, Jiang X, Wang S |
IEEE/ACM transactions on computational biology and bioinformatics |
29993695 |
IEEE/ACM Trans Comput Biol Bioinform |
2019 Jan-Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29993695 |
| A privacy-preserving distributed filtering framework for NLP artifacts. |
Sadat MN, Aziz MMA, Mohammed N, Pakhomov S, Liu H, Jiang X |
BMC medical informatics and decision making |
31493797 |
BMC Med Inform Decis Mak |
2019 Sep 7 |
https://www.ncbi.nlm.nih.gov/pubmed/31493797 |
| Practical and Efficient in-Enclave Verification of Privacy Compliance. |
Liu W, Wang W, Chen H, Wang X, Lu Y, Chen K, Wang X, Shen Q, Chen Y, Tang H |
Proceedings. International Conference on Dependable Systems and Networks |
35919377 |
Proc (Int Conf Dependable Syst Netw) |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/35919377 |
| Efficient and Precise Secure Generalized Edit Distance and Beyond. |
Zhu R, Huang Y |
IEEE transactions on dependable and secure computing |
37020740 |
IEEE Trans Dependable Secure Comput |
2022 Jan-Feb |
https://www.ncbi.nlm.nih.gov/pubmed/37020740 |
| Private and Efficient Query Processing on Outsourced Genomic Databases. |
Ghasemi R, Al Aziz MM, Mohammed N, Dehkordi MH, Jiang X |
IEEE journal of biomedical and health informatics |
27834660 |
IEEE J Biomed Health Inform |
2017 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/27834660 |
| Secure and Efficient Regression Analysis Using a Hybrid Cryptographic Framework: Development and Evaluation. |
Sadat MN, Jiang X, Aziz MMA, Wang S, Mohammed N |
JMIR medical informatics |
29506966 |
JMIR Med Inform |
2018 Mar 5 |
https://www.ncbi.nlm.nih.gov/pubmed/29506966 |
| SecureLR: Secure Logistic Regression Model via a Hybrid Cryptographic Protocol. |
Jiang Y, Hamer J, Wang C, Jiang X, Kim M, Song Y, Xia Y, Mohammed N, Sadat MN, Wang S |
IEEE/ACM transactions on computational biology and bioinformatics |
29994005 |
IEEE/ACM Trans Comput Biol Bioinform |
2019 Jan-Feb |
https://www.ncbi.nlm.nih.gov/pubmed/29994005 |
| Selecting Optimal Subset to release under Differentially Private M-estimators from Hybrid Datasets. |
Wang M, Ji Z, Kim HE, Wang S, Xiong L, Jiang X |
IEEE transactions on knowledge and data engineering |
30034201 |
IEEE Trans Knowl Data Eng |
2018 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30034201 |
| Secure Logistic Regression Based on Homomorphic Encryption: Design and Evaluation. |
Kim M, Song Y, Wang S, Xia Y, Jiang X |
JMIR medical informatics |
29666041 |
JMIR Med Inform |
2018 Apr 17 |
https://www.ncbi.nlm.nih.gov/pubmed/29666041 |
| Perfectly Secure and Efficient Two-Party Electronic-Health-Record Linkage. |
Chen F, Jiang X, Wang S, Schilling LM, Meeker D, Ong T, Matheny ME, Doctor JN, Ohno-Machado L, Vaidya J |
IEEE internet computing |
29867290 |
IEEE Internet Comput |
2018 Mar-Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29867290 |
| SCOTCH: Secure Counting Of encrypTed genomiC data using a Hybrid approach. |
Chenghong W, Jiang Y, Mohammed N, Chen F, Jiang X, Al Aziz MM, Sadat MN, Wang S |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
29854245 |
AMIA Annu Symp Proc |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29854245 |
| iDASH secure genome analysis competition 2018: blockchain genomic data access logging, homomorphic encryption on GWAS, and DNA segment searching. |
Kuo TT, Jiang X, Tang H, Wang X, Bath T, Bu D, Wang L, Harmanci A, Zhang S, Zhi D, Sofia HJ, Ohno-Machado L |
BMC medical genomics |
32693816 |
BMC Med Genomics |
2020 Jul 21 |
https://www.ncbi.nlm.nih.gov/pubmed/32693816 |
| EXpectation Propagation LOgistic REgRession on permissioned blockCHAIN (ExplorerChain): decentralized online healthcare/genomics predictive model learning. |
Kuo TT, Gabriel RA, Cidambi KR, Ohno-Machado L |
Journal of the American Medical Informatics Association : JAMIA |
32364235 |
J Am Med Inform Assoc |
2020 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32364235 |
| Leaky Cauldron on the Dark Land: Understanding Memory Side-Channel Hazards in SGX. |
Wang W, Chen G, Pan X, Zhang Y, Wang X, Bindschaedler V, Tang H, Gunter CA |
Conference on Computer and Communications Security : proceedings of the ... conference on computer and communications security. ACM Conference on Computer and Communications Security |
30853868 |
Conf Comput Commun Secur |
2017 Oct-Nov |
https://www.ncbi.nlm.nih.gov/pubmed/30853868 |
| Privacy-preserving techniques of genomic data-a survey. |
Aziz MMA, Sadat MN, Alhadidi D, Wang S, Jiang X, Brown CL, Mohammed N |
Briefings in bioinformatics |
29121240 |
Brief Bioinform |
2019 May 21 |
https://www.ncbi.nlm.nih.gov/pubmed/29121240 |
| Omicseq: a web-based search engine for exploring omics datasets. |
Sun X, Pittard WS, Xu T, Chen L, Zwick ME, Jiang X, Wang F, Qin ZS |
Nucleic acids research |
28402462 |
Nucleic Acids Res |
2017 Jul 3 |
https://www.ncbi.nlm.nih.gov/pubmed/28402462 |
| The anatomy of a distributed predictive modeling framework: online learning, blockchain network, and consensus algorithm. |
Kuo TT |
JAMIA open |
32734160 |
JAMIA Open |
2020 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/32734160 |
| Logistic regression model training based on the approximate homomorphic encryption. |
Kim A, Song Y, Kim M, Lee K, Cheon JH |
BMC medical genomics |
30309349 |
BMC Med Genomics |
2018 Oct 11 |
https://www.ncbi.nlm.nih.gov/pubmed/30309349 |
| A Scalable Privacy-preserving Data Generation Methodology for Exploratory Analysis. |
Vaidya J, Shafiq B, Asani M, Adam N, Jiang X, Ohno-Machado L |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
29854240 |
AMIA Annu Symp Proc |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29854240 |
| Privacy-Preserving Predictive Modeling: Harmonization of Contextual Embeddings From Different Sources. |
Huang Y, Lee J, Wang S, Sun J, Liu H, Jiang X |
JMIR medical informatics |
29769172 |
JMIR Med Inform |
2018 May 16 |
https://www.ncbi.nlm.nih.gov/pubmed/29769172 |
| Distributed learning from multiple EHR databases: Contextual embedding models for medical events. |
Li Z, Roberts K, Jiang X, Long Q |
Journal of biomedical informatics |
30825539 |
J Biomed Inform |
2019 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30825539 |
| Privacy Policy and Technology in Biomedical Data Science. |
Arellano AM, Dai W, Wang S, Jiang X, Ohno-Machado L |
Annual review of biomedical data science |
31058261 |
Annu Rev Biomed Data Sci |
2018 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31058261 |
| A community effort to protect genomic data sharing, collaboration and outsourcing. |
Wang S, Jiang X, Tang H, Wang X, Bu D, Carey K, Dyke SO, Fox D, Jiang C, Lauter K, Malin B, Sofia H, Telenti A, Wang L, Wang W, Ohno-Machado L |
NPJ genomic medicine |
29263842 |
NPJ Genom Med |
2017 |
https://www.ncbi.nlm.nih.gov/pubmed/29263842 |
| Privacy-preserving model learning on a blockchain network-of-networks. |
Kuo TT, Kim J, Gabriel RA |
Journal of the American Medical Informatics Association : JAMIA |
31943009 |
J Am Med Inform Assoc |
2020 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31943009 |
| Haplotype-based membership inference from summary genomic data. |
Bu D, Wang X, Tang H |
Bioinformatics (Oxford, England) |
34252973 |
Bioinformatics |
2021 Jul 12 |
https://www.ncbi.nlm.nih.gov/pubmed/34252973 |
| Pharmacoepidemiology in the era of real-world evidence. |
Toh S |
Current epidemiology reports |
29204331 |
Curr Epidemiol Rep |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29204331 |
| Variance estimation in inverse probability weighted Cox models. |
Shu D, Young JG, Toh S, Wang R |
Biometrics |
32662087 |
Biometrics |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32662087 |
| Automatable Distributed Regression Analysis of Vertically Partitioned Data Facilitated by PopMedNet: Feasibility and Enhancement Study. |
Her Q, Kent T, Samizo Y, Slavkovic A, Vilk Y, Toh S |
JMIR medical informatics |
33890866 |
JMIR Med Inform |
2021 Apr 23 |
https://www.ncbi.nlm.nih.gov/pubmed/33890866 |
| Inverse probability weighted Cox model in multi-site studies without sharing individual-level data. |
Shu D, Yoshida K, Fireman BH, Toh S |
Statistical methods in medical research |
31448681 |
Stat Methods Med Res |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31448681 |
| Safe Expectations: Current State and Future Directions for Medication Safety in Pregnancy Research. |
Wood ME, Andrade SE, Toh S |
Clinical therapeutics |
31563392 |
Clin Ther |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/31563392 |
| Development and application of two semi-automated tools for targeted medical product surveillance in a distributed data network. |
Connolly JG, Wang SV, Fuller CC, Toh S, Panozzo CA, Cocoros N, Zhou M, Gagne JJ, Maro JC |
Current epidemiology reports |
29204333 |
Curr Epidemiol Rep |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29204333 |
| Using machine learning to identify health outcomes from electronic health record data. |
Wong J, Horwitz MM, Zhou L, Toh S |
Current epidemiology reports |
30555773 |
Curr Epidemiol Rep |
2018 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/30555773 |
| Privacy-protecting estimation of adjusted risk ratios using modified Poisson regression in multi-center studies. |
Shu D, Young JG, Toh S |
BMC medical research methodology |
31805872 |
BMC Med Res Methodol |
2019 Dec 5 |
https://www.ncbi.nlm.nih.gov/pubmed/31805872 |
| Analytic and Data Sharing Options in Real-World Multidatabase Studies of Comparative Effectiveness and Safety of Medical Products. |
Toh S |
Clinical pharmacology and therapeutics |
31869442 |
Clin Pharmacol Ther |
2020 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31869442 |
| Suitability of administrative claims databases for bariatric surgery research - is the glass half-full or half-empty? |
Li X, Lewis KH, Callaway K, Wharam JF, Toh S |
BMC medical research methodology |
32894060 |
BMC Med Res Methodol |
2020 Sep 7 |
https://www.ncbi.nlm.nih.gov/pubmed/32894060 |
| Comparison of privacy-protecting analytic and data-sharing methods: A simulation study. |
Yoshida K, Gruber S, Fireman BH, Toh S |
Pharmacoepidemiology and drug safety |
30022561 |
Pharmacoepidemiol Drug Saf |
2018 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/30022561 |
| Validity of Privacy-Protecting Analytical Methods That Use Only Aggregate-Level Information to Conduct Multivariable-Adjusted Analysis in Distributed Data Networks. |
Li X, Fireman BH, Curtis JR, Arterburn DE, Fisher DP, Moyneur É, Gallagher M, Raebel MA, Nowell WB, Lagreid L, Toh S |
American journal of epidemiology |
30535131 |
Am J Epidemiol |
2019 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30535131 |
| Estimating Effects of Dynamic Treatment Strategies in Pharmacoepidemiologic Studies with Time-varying Confounding: A Primer. |
Li X, Young JG, Toh S |
Current epidemiology reports |
29204332 |
Curr Epidemiol Rep |
2017 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/29204332 |
| ppmHR: A Privacy-protecting Tool to Fit Inverse Probability Weighted Cox Models in Multisite Studies. |
Shu D, Toh S |
Epidemiology (Cambridge, Mass.) |
33165009 |
Epidemiology |
2021 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/33165009 |
| Distributed Regression Analysis Application in Large Distributed Data Networks: Analysis of Precision and Operational Performance. |
Her Q, Malenfant J, Zhang Z, Vilk Y, Young J, Tabano D, Hamilton J, Johnson R, Raebel M, Boudreau D, Toh S |
JMIR medical informatics |
32496200 |
JMIR Med Inform |
2020 Jun 4 |
https://www.ncbi.nlm.nih.gov/pubmed/32496200 |
| Whole genome sequencing of Shigella sonnei through PulseNet Latin America and Caribbean: advancing global surveillance of foodborne illnesses. |
Baker KS, Campos J, Pichel M, Della Gaspera A, Duarte-Martínez F, Campos-Chacón E, Bolaños-Acuña HM, Guzmán-Verri C, Mather AE, Diaz Velasco S, Zamudio Rojas ML, Forbester JL, Connor TR, Keddy KH, Smith AM, López de Delgado EA, Angiolillo G, Cuaical N, Fernández J, Aguayo C, Morales Aguilar M, Valenzuela C, Morales Medrano AJ, Sirok A, Weiler Gustafson N, Diaz Guevara PL, Montaño LA, Perez E, Thomson NR |
Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases |
28389276 |
Clin Microbiol Infect |
2017 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/28389276 |
| Integrating whole-genome sequencing within the National Antimicrobial Resistance Surveillance Program in the Philippines. |
Argimón S, Masim MAL, Gayeta JM, Lagrada ML, Macaranas PKV, Cohen V, Limas MT, Espiritu HO, Palarca JC, Chilam J, Jamoralin MC Jr, Villamin AS, Borlasa JB, Olorosa AM, Hernandez LFT, Boehme KD, Jeffrey B, Abudahab K, Hufano CM, Sia SB, Stelling J, Holden MTG, Aanensen DM, Carlos CC |
Nature communications |
32483195 |
Nat Commun |
2020 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32483195 |
| Protocol for an interdisciplinary cross-sectional study investigating the social, biological and community-level drivers of antimicrobial resistance (AMR): Holistic Approach to Unravel Antibacterial Resistance in East Africa (HATUA). |
Asiimwe BB, Kiiru J, Mshana SE, Neema S, Keenan K, Kesby M, Mwanga JR, Sloan DJ, Mmbaga BT, Smith VA, Gillespie SH, Lynch AG, Sandeman A, Stelling J, Elliott A, Aanensen DM, Kibiki GE, Sabiiti W, Holden MTG, HATUA Consortium |
BMJ open |
34006022 |
BMJ Open |
2021 Mar 8 |
https://www.ncbi.nlm.nih.gov/pubmed/34006022 |
| Exploring the value of MALDI-TOF MS for the detection of clonal outbreaks of Burkholderia contaminans. |
Fiamanya S, Cipolla L, Prieto M, Stelling J |
Journal of microbiological methods |
33383044 |
J Microbiol Methods |
2021 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/33383044 |
| Genomic surveillance of methicillin-resistant Staphylococcus aureus in the Philippines,
2013-2014. |
Masim ML, Argimón S, Espiritu HO, Magbanua MA, Lagrada ML, Olorosa AM, Cohen V, Gayeta JM, Jeffrey B, Abudahab K, Hufano CM, Sia SB, Holden MTG, Stelling J, Aanensen DM, Carlos CC, Philippines Antimicrobial Resistance Surveillance Program |
Western Pacific surveillance and response journal : WPSAR |
34094618 |
Western Pac Surveill Response J |
2021 Jan-Mar |
https://www.ncbi.nlm.nih.gov/pubmed/34094618 |
| We are falling behind on TB elimination targets: can whole-genome sequencing guide our efforts? |
Wheeler N |
Thorax |
31331948 |
Thorax |
2019 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/31331948 |
| Surveillance of antimicrobial resistance and evolving microbial populations in Vermont: 2011-2018. |
Stelling J, Read JS, Fritch W, O'Brien TF, Peters R, Clark A, Bokhari M, Lion M, Katwa P, Kelso P |
Expert review of anti-infective therapy |
32552054 |
Expert Rev Anti Infect Ther |
2020 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/32552054 |
| Staphylococcus aureus antimicrobial susceptibility trends and cluster detection in Vermont: 2012-2018. |
Stelling J, Read JS, Peters R, Clark A, Bokhari M, O'Brien TF |
Expert review of anti-infective therapy |
33131354 |
Expert Rev Anti Infect Ther |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/33131354 |
| Why surveillance of antimicrobial resistance needs to be automated and comprehensive. |
O'Brien TF, Clark A, Peters R, Stelling J |
Journal of global antimicrobial resistance |
30326273 |
J Glob Antimicrob Resist |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/30326273 |
| Genomic surveillance of Neisseria gonorrhoeae in the Philippines, 2013-2014. |
Jamoralin MC Jr, Argimón S, Lagrada ML, Villamin AS, Masim ML, Gayeta JM, Boehme KD, Olorosa AM, Sia SB, Hufano CM, Cohen V, Hernandez LT, Jeffrey B, Abudahab K, Stelling J, Holden MTG, Aanensenb DM, e,*, Carlosa CC, Philippines Antimicrobial Resistance Surveillance Program |
Western Pacific surveillance and response journal : WPSAR |
34094619 |
Western Pac Surveill Response J |
2021 Jan-Mar |
https://www.ncbi.nlm.nih.gov/pubmed/34094619 |
| Genomic surveillance of Acinetobacter baumannii in the Philippines, 2013-2014. |
Chilam J, Argimón S, Limas MT, Masim ML, Gayeta JM, Lagrada ML, Olorosa AM, Cohen V, Hernandez LT, Jeffrey B, Abudahab K, Hufano CM, Sia SB, Holden MTG, Stelling J, Aanensen DM, Carlos CC, Philippines Antimicrobial Resistance Surveillance Program |
Western Pacific surveillance and response journal : WPSAR |
35251744 |
Western Pac Surveill Response J |
2021 Oct-Dec |
https://www.ncbi.nlm.nih.gov/pubmed/35251744 |
| PulseNet International: Vision for the implementation of whole genome sequencing (WGS) for global food-borne disease surveillance. |
Nadon C, Van Walle I, Gerner-Smidt P, Campos J, Chinen I, Concepcion-Acevedo J, Gilpin B, Smith AM, Man Kam K, Perez E, Trees E, Kubota K, Takkinen J, Nielsen EM, Carleton H, FWD-NEXT Expert Panel |
Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin |
28662764 |
Euro Surveill |
2017 Jun 8 |
https://www.ncbi.nlm.nih.gov/pubmed/28662764 |
| Using information technology to improve surveillance of antimicrobial resistance in South East Asia. |
Vong S, Anciaux A, Hulth A, Stelling J, Thamlikitkul V, Gupta S, Fuks JM, Walia K, Rattanumpawan P, Eremin S, Tisocki K, Sedai TR, Sharma A |
BMJ (Clinical research ed.) |
28874344 |
BMJ |
2017 Sep 5 |
https://www.ncbi.nlm.nih.gov/pubmed/28874344 |
| Use of WHONET-SaTScan system for simulated real-time detection of antimicrobial resistance clusters in a hospital in Italy, 2012 to 2014. |
Natale A, Stelling J, Meledandri M, Messenger LA, D'Ancona F |
Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin |
28333615 |
Euro Surveill |
2017 Mar 16 |
https://www.ncbi.nlm.nih.gov/pubmed/28333615 |
| Genomic surveillance of Salmonella spp. in the Philippines during 2013-2014. |
Lagrada ML, Argimón S, Borlasa JB, Abad JP, Gayeta JM, Masim ML, Olorosa AM, Cohen V, Jeffrey B, Abudahab K, Sia SB, Hufano CM, Stelling J, Holden MTG, Aanensen DM, Carlos CC |
Transactions of the Royal Society of Tropical Medicine and Hygiene |
35999186 |
Trans R Soc Trop Med Hyg |
2022 Dec 2 |
https://www.ncbi.nlm.nih.gov/pubmed/35999186 |
| Modelling Interventions to Combat Antibacterial Resistance in East Africa Using Causal Bayesian Networks. |
Ke X, Smith VA, Mshana SE, Asiimwe B, Neema S, Kiiru J, Mushi MF, Mmbaga BT, Mwanga JR, Kibiki G, Stelling J, Gillespie SH, Green DL, Benvari S, Sabiiti W, Kesby M, Lynch AG, Sandeman A, Sloan DJ, Holden MT, Keenan K, HATUA Consortium |
Research square |
39975933 |
Res Sq |
2025 Feb 4 |
https://www.ncbi.nlm.nih.gov/pubmed/39975933 |
| Automated detection of outbreaks of antimicrobial-resistant bacteria in Japan. |
Tsutsui A, Yahara K, Clark A, Fujimoto K, Kawakami S, Chikumi H, Iguchi M, Yagi T, Baker MA, O'Brien T, Stelling J |
The Journal of hospital infection |
30321629 |
J Hosp Infect |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/30321629 |
| Evaluation of parameters affecting performance and reliability of machine learning-based antibiotic susceptibility testing from whole genome sequencing data. |
Hicks AL, Wheeler N, Sánchez-Busó L, Rakeman JL, Harris SR, Grad YH |
PLoS computational biology |
31479500 |
PLoS Comput Biol |
2019 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/31479500 |
| Statistical detection of geographic clusters of resistant Escherichia coli in a regional network with WHONET and SaTScan. |
Park R, O'Brien TF, Huang SS, Baker MA, Yokoe DS, Kulldorff M, Barrett C, Swift J, Stelling J, Centers for Disease Control and Prevention Epicenters Program |
Expert review of anti-infective therapy |
27530311 |
Expert Rev Anti Infect Ther |
2016 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/27530311 |
| Comparison of de-duplication methods used by WHO Global Antimicrobial Resistance Surveillance System (GLASS) and Japan Nosocomial Infections Surveillance (JANIS) in the surveillance of antimicrobial resistance. |
Kajihara T, Yahara K, Stelling J, Eremin SR, Tornimbene B, Thamlikitkul V, Hirabayashi A, Anzai E, Wakai S, Matsunaga N, Hayakawa K, Ohmagari N, Sugai M, Shibayama K |
PloS one |
32589639 |
PLoS One |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/32589639 |
| Automated outbreak detection of hospital-associated pathogens: Value to infection prevention programs. |
Baker MA, Yokoe DS, Stelling J, Kleinman K, Kaganov RE, Letourneau AR, Varma N, O'Brien T, Kulldorff M, Babalola D, Barrett C, Drees M, Coady MH, Isaacs A, Platt R, Huang SS, CDC Prevention Epicenters Program |
Infection control and hospital epidemiology |
32519624 |
Infect Control Hosp Epidemiol |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32519624 |
| Phantom PAINS: Problems with the Utility of Alerts for Pan-Assay INterference CompoundS. |
Capuzzi SJ, Muratov EN, Tropsha A |
Journal of chemical information and modeling |
28165734 |
J Chem Inf Model |
2017 Mar 27 |
https://www.ncbi.nlm.nih.gov/pubmed/28165734 |
| Reproducibility, sharing and progress in nanomaterial databases. |
Tropsha A, Mills KC, Hickey AJ |
Nature nanotechnology |
29209007 |
Nat Nanotechnol |
2017 Dec 6 |
https://www.ncbi.nlm.nih.gov/pubmed/29209007 |
| COVID-KOP: Integrating Emerging COVID-19 Data with the ROBOKOP Database. |
Korn D, Bobrowski T, Li M, Kebede Y, Wang P, Owen P, Vaidya G, Muratov E, Chirkova R, Bizon C, Tropsha A |
ChemRxiv : the preprint server for chemistry |
32601612 |
ChemRxiv |
2020 Jun 18 |
https://www.ncbi.nlm.nih.gov/pubmed/32601612 |
| Deep Learning-driven research for drug discovery: Tackling Malaria. |
Neves BJ, Braga RC, Alves VM, Lima MNN, Cassiano GC, Muratov EN, Costa FTM, Andrade CH |
PLoS computational biology |
32069285 |
PLoS Comput Biol |
2020 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/32069285 |
| Synthesis and Structure-Activity Relationships of DCLK1 Kinase Inhibitors Based on a 5,11-Dihydro-6H-benzo[e]pyrimido[5,4-b][1,4]diazepin-6-one Scaffold. |
Ferguson FM, Liu Y, Harshbarger W, Huang L, Wang J, Deng X, Capuzzi SJ, Muratov EN, Tropsha A, Muthuswamy S, Westover KD, Gray NS |
Journal of medicinal chemistry |
32530623 |
J Med Chem |
2020 Jul 23 |
https://www.ncbi.nlm.nih.gov/pubmed/32530623 |
| QSAR without borders. |
Muratov EN, Bajorath J, Sheridan RP, Tetko IV, Filimonov D, Poroikov V, Oprea TI, Baskin II, Varnek A, Roitberg A, Isayev O, Curtarolo S, Fourches D, Cohen Y, Aspuru-Guzik A, Winkler DA, Agrafiotis D, Cherkasov A, Tropsha A |
Chemical Society reviews |
32356548 |
Chem Soc Rev |
2020 Jun 7 |
https://www.ncbi.nlm.nih.gov/pubmed/32356548 |
| COVID-KOP: integrating emerging COVID-19 data with the ROBOKOP database. |
Korn D, Bobrowski T, Li M, Kebede Y, Wang P, Owen P, Vaidya G, Muratov E, Chirkova R, Bizon C, Tropsha A |
Bioinformatics (Oxford, England) |
33175089 |
Bioinformatics |
2021 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/33175089 |
| Chemotext: A Publicly Available Web Server for Mining Drug-Target-Disease Relationships in PubMed. |
Capuzzi SJ, Thornton TE, Liu K, Baker N, Lam WI, O'Banion CP, Muratov EN, Pozefsky D, Tropsha A |
Journal of chemical information and modeling |
29300482 |
J Chem Inf Model |
2018 Feb 26 |
https://www.ncbi.nlm.nih.gov/pubmed/29300482 |
| Quantitative high-throughput phenotypic screening of pediatric cancer cell lines identifies multiple opportunities for drug repurposing. |
Shen M, Asawa R, Zhang YQ, Cunningham E, Sun H, Tropsha A, Janzen WP, Muratov EN, Capuzzi SJ, Farag S, Jadhav A, Blatt J, Simeonov A, Martinez NJ |
Oncotarget |
29435139 |
Oncotarget |
2018 Jan 12 |
https://www.ncbi.nlm.nih.gov/pubmed/29435139 |
| QSAR-Driven Design and Discovery of Novel Compounds With Antiplasmodial and Transmission Blocking Activities. |
Lima MNN, Melo-Filho CC, Cassiano GC, Neves BJ, Alves VM, Braga RC, Cravo PVL, Muratov EN, Calit J, Bargieri DY, Costa FTM, Andrade CH |
Frontiers in pharmacology |
29559909 |
Front Pharmacol |
2018 |
https://www.ncbi.nlm.nih.gov/pubmed/29559909 |
| Unveiling the Kinomes of Leishmania infantum and L. braziliensis Empowers the Discovery of New Kinase Targets and Antileishmanial Compounds. |
Borba JVB, Silva AC, Ramos PIP, Grazzia N, Miguel DC, Muratov EN, Furnham N, Andrade CH |
Computational and structural biotechnology journal |
30949306 |
Comput Struct Biotechnol J |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30949306 |
| Cheminformatics-driven discovery of polymeric micelle formulations for poorly soluble drugs. |
Alves VM, Hwang D, Muratov E, Sokolsky-Papkov M, Varlamova E, Vinod N, Lim C, Andrade CH, Tropsha A, Kabanov A |
Science advances |
31249867 |
Sci Adv |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/31249867 |
| Design, construction, and validation of optogenetic proteins. |
O'Banion CP, Goswami A, Lawrence DS |
Methods in enzymology |
31128778 |
Methods Enzymol |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31128778 |
| Compartmentalized cAMP Generation by Engineered Photoactivated Adenylyl Cyclases. |
O'Banion CP, Vickerman BM, Haar L, Lawrence DS |
Cell chemical biology |
31353320 |
Cell Chem Biol |
2019 Oct 17 |
https://www.ncbi.nlm.nih.gov/pubmed/31353320 |
| Learning Drug-Disease-Target Embedding (DDTE) from knowledge graphs to inform drug repurposing hypotheses. |
Moon C, Jin C, Dong X, Abrar S, Zheng W, Chirkova RY, Tropsha A |
Journal of biomedical informatics |
34119691 |
J Biomed Inform |
2021 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/34119691 |
| A critical overview of computational approaches employed for COVID-19 drug discovery. |
Muratov EN , Amaro R , Andrade CH , Brown N , Ekins S , Fourches D , Isayev O , Kozakov D , Medina-Franco JL , Merz KM , Oprea TI , Poroikov V , Schneider G , Todd MH , Varnek A , Winkler DA , Zakharov AV , Cherkasov A , Tropsha A |
Chemical Society reviews |
34212944 |
Chem Soc Rev |
2021 Aug 21 |
https://www.ncbi.nlm.nih.gov/pubmed/34212944 |
| Pharmacokinetics Profiler (PhaKinPro): Model Development, Validation, and Implementation as a Web Tool for Triaging Compounds with Undesired Pharmacokinetics Profiles. |
Rath M, Wellnitz J, Martin HJ, Melo-Filho C, Hochuli JE, Silva GM, Beasley JM, Travis M, Sessions ZL, Popov KI, Zakharov AV, Cherkasov A, Alves V, Muratov EN, Tropsha A |
Journal of medicinal chemistry |
38568752 |
J Med Chem |
2024 Apr 25 |
https://www.ncbi.nlm.nih.gov/pubmed/38568752 |
| Applying a Gene Reversal Rate Computational Methodology to Identify Drugs for a Rare Cancer: Inflammatory Breast Cancer. |
Ji X, Williams KP, Zheng W |
Cancer informatics |
37846218 |
Cancer Inform |
2023 |
https://www.ncbi.nlm.nih.gov/pubmed/37846218 |
| Multi-Descriptor Read Across (MuDRA): A Simple and Transparent Approach for Developing Accurate Quantitative Structure-Activity Relationship Models. |
Alves VM, Golbraikh A, Capuzzi SJ, Liu K, Lam WI, Korn DR, Pozefsky D, Andrade CH, Muratov EN, Tropsha A |
Journal of chemical information and modeling |
29809005 |
J Chem Inf Model |
2018 Jun 25 |
https://www.ncbi.nlm.nih.gov/pubmed/29809005 |
| Pred-Skin: A Web Portal for Accurate Prediction of Human Skin Sensitizers. |
Borba JVB, Braga RC, Alves VM, Muratov EN, Kleinstreuer N, Tropsha A, Andrade CH |
Chemical research in toxicology |
32673477 |
Chem Res Toxicol |
2021 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/32673477 |
| Literature-Wide Association Studies (LWAS) for a Rare Disease: Drug Repurposing for Inflammatory Breast Cancer. |
Ji X, Jin C, Dong X, Dixon MS, Williams KP, Zheng W |
Molecules (Basel, Switzerland) |
32872166 |
Molecules |
2020 Aug 28 |
https://www.ncbi.nlm.nih.gov/pubmed/32872166 |
| A semantic similarity based methodology for predicting protein-protein interactions: Evaluation with P53-interacting kinases. |
Cox S, Dong X, Rai R, Christopherson L, Zheng W, Tropsha A, Schmitt C |
Journal of biomedical informatics |
33007449 |
J Biomed Inform |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/33007449 |
| QSAR-driven design, synthesis and discovery of potent chalcone derivatives with antitubercular activity. |
Gomes MN, Braga RC, Grzelak EM, Neves BJ, Muratov E, Ma R, Klein LL, Cho S, Oliveira GR, Franzblau SG, Andrade CH |
European journal of medicinal chemistry |
28582669 |
Eur J Med Chem |
2017 Sep 8 |
https://www.ncbi.nlm.nih.gov/pubmed/28582669 |
| Design and Profiling of a Subcellular Targeted Optogenetic cAMP-Dependent Protein Kinase. |
O'Banion CP, Priestman MA, Hughes RM, Herring LE, Capuzzi SJ, Lawrence DS |
Cell chemical biology |
29104065 |
Cell Chem Biol |
2018 Jan 18 |
https://www.ncbi.nlm.nih.gov/pubmed/29104065 |
| The SistematX Web Portal of Natural Products: An Update. |
Costa RPO, Lucena LF, Silva LMA, Zocolo GJ, Herrera-Acevedo C, Scotti L, Da-Costa FB, Ionov N, Poroikov V, Muratov EN, Scotti MT |
Journal of chemical information and modeling |
34014674 |
J Chem Inf Model |
2021 Jun 28 |
https://www.ncbi.nlm.nih.gov/pubmed/34014674 |
| Modernization of Enoxaparin Molecular Weight Determination Using Homogeneous Standards. |
Arnold KM, Capuzzi SJ, Xu Y, Muratov EN, Carrick K, Szajek AY, Tropsha A, Liu J |
Pharmaceuticals (Basel, Switzerland) |
28737679 |
Pharmaceuticals (Basel) |
2017 Jul 22 |
https://www.ncbi.nlm.nih.gov/pubmed/28737679 |
| Chalcone Derivatives: Promising Starting Points for Drug Design. |
Gomes MN, Muratov EN, Pereira M, Peixoto JC, Rosseto LP, Cravo PVL, Andrade CH, Neves BJ |
Molecules (Basel, Switzerland) |
28757583 |
Molecules |
2017 Jul 25 |
https://www.ncbi.nlm.nih.gov/pubmed/28757583 |
| Optogenetic perturbation of the biochemical pathways that control cell behavior. |
Haar LL, Lawrence DS, Hughes RM |
Methods in enzymology |
31155059 |
Methods Enzymol |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31155059 |
| STopTox: An in Silico Alternative to Animal Testing for Acute Systemic and Topical Toxicity. |
Borba JVB, Alves VM, Braga RC, Korn DR, Overdahl K, Silva AC, Hall SUS, Overdahl E, Kleinstreuer N, Strickland J, Allen D, Andrade CH, Muratov EN, Tropsha A |
Environmental health perspectives |
35192406 |
Environ Health Perspect |
2022 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/35192406 |
| Knowledge-based approaches to drug discovery for rare diseases. |
Alves VM, Korn D, Pervitsky V, Thieme A, Capuzzi SJ, Baker N, Chirkova R, Ekins S, Muratov EN, Hickey A, Tropsha A |
Drug discovery today |
34718207 |
Drug Discov Today |
2022 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/34718207 |
| Correction to "Synthesis and Structure-Activity Relationships of DCLK1 Kinase Inhibitors Based on a 5,11-Dihydro-6H-benzo[e]pyrimido[5,4-b][1,4]diazepin-6-one Scaffold". |
Ferguson FM, Liu Y, Harshbarger W, Huang L, Wang J, Deng X, Capuzzi SJ, Muratov EN, Tropsha A, Muthuswamy S, Westover KD, Gray NS |
Journal of medicinal chemistry |
32790356 |
J Med Chem |
2020 Sep 10 |
https://www.ncbi.nlm.nih.gov/pubmed/32790356 |
| SCAM Detective: Accurate Predictor of Small, Colloidally Aggregating Molecules. |
Alves VM, Capuzzi SJ, Braga RC, Korn D, Hochuli JE, Bowler KH, Yasgar A, Rai G, Simeonov A, Muratov EN, Zakharov AV, Tropsha A |
Journal of chemical information and modeling |
32678597 |
J Chem Inf Model |
2020 Aug 24 |
https://www.ncbi.nlm.nih.gov/pubmed/32678597 |
| Computer-Aided Discovery and Characterization of Novel Ebola Virus Inhibitors. |
Capuzzi SJ, Sun W, Muratov EN, Martínez-Romero C, He S, Zhu W, Li H, Tawa G, Fisher EG, Xu M, Shinn P, Qiu X, García-Sastre A, Zheng W, Tropsha A |
Journal of medicinal chemistry |
29624387 |
J Med Chem |
2018 Apr 26 |
https://www.ncbi.nlm.nih.gov/pubmed/29624387 |
| Engineered BRET-Based Biologic Light Sources Enable Spatiotemporal Control over Diverse Optogenetic Systems. |
Parag-Sharma K, O'Banion CP, Henry EC, Musicant AM, Cleveland JL, Lawrence DS, Amelio AL |
ACS synthetic biology |
31834783 |
ACS Synth Biol |
2020 Jan 17 |
https://www.ncbi.nlm.nih.gov/pubmed/31834783 |
| Synergistic and Antagonistic Drug Combinations against SARS-CoV-2. |
Bobrowski T, Chen L, Eastman RT, Itkin Z, Shinn P, Chen CZ, Guo H, Zheng W, Michael S, Simeonov A, Hall MD, Zakharov AV, Muratov EN |
Molecular therapy : the journal of the American Society of Gene Therapy |
33333292 |
Mol Ther |
2021 Feb 3 |
https://www.ncbi.nlm.nih.gov/pubmed/33333292 |
| Predicting Adverse Drug Effects from Literature- and Database-Mined Assertions. |
La MK, Sedykh A, Fourches D, Muratov E, Tropsha A |
Drug safety |
29876834 |
Drug Saf |
2018 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/29876834 |
| Chemistry-Wide Association Studies (CWAS): A Novel Framework for Identifying and Interpreting Structure-Activity Relationships. |
Low YS, Alves VM, Fourches D, Sedykh A, Andrade CH, Muratov EN, Rusyn I, Tropsha A |
Journal of chemical information and modeling |
30376324 |
J Chem Inf Model |
2018 Nov 26 |
https://www.ncbi.nlm.nih.gov/pubmed/30376324 |
| Computer-aided discovery of two novel chalcone-like compounds active and selective against Leishmania infantum. |
Gomes MN, Alcântara LM, Neves BJ, Melo-Filho CC, Freitas-Junior LH, Moraes CB, Ma R, Franzblau SG, Muratov E, Andrade CH |
Bioorganic & medicinal chemistry letters |
28434763 |
Bioorg Med Chem Lett |
2017 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/28434763 |
| Chemical toxicity prediction for major classes of industrial chemicals: Is it possible to develop universal models covering cosmetics, drugs, and pesticides? |
Alves VM, Muratov EN, Zakharov A, Muratov NN, Andrade CH, Tropsha A |
Food and chemical toxicology : an international journal published for the British Industrial Biological Research Association |
28412406 |
Food Chem Toxicol |
2018 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/28412406 |
| A bibliometric review of drug repurposing. |
Baker NC, Ekins S, Williams AJ, Tropsha A |
Drug discovery today |
29330123 |
Drug Discov Today |
2018 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/29330123 |
| COVID-19 Knowledge Extractor (COKE): A Tool and a Web Portal to Extract Drug - Target Protein Associations from the CORD-19 Corpus of Scientific Publications on COVID-19. |
Korn D, Pervitsky V, Bobrowski T, Alves VM, Schmitt C, Bizon C, Baker N, Chirkova R, Cherkasov A, Muratov E, Tropsha A |
ChemRxiv : the preprint server for chemistry |
33269341 |
ChemRxiv |
2020 Nov 26 |
https://www.ncbi.nlm.nih.gov/pubmed/33269341 |
| Learning from history: do not flatten the curve of antiviral research! |
Bobrowski T, Melo-Filho CC, Korn D, Alves VM, Popov KI, Auerbach S, Schmitt C, Moorman NJ, Muratov EN, Tropsha A |
Drug discovery today |
32679173 |
Drug Discov Today |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32679173 |
| Discovery of Synergistic and Antagonistic Drug Combinations against SARS-CoV-2 In Vitro. |
Bobrowski T, Chen L, Eastman RT, Itkin Z, Shinn P, Chen C, Guo H, Zheng W, Michael S, Simeonov A, Hall MD, Zakharov AV, Muratov EN |
bioRxiv : the preprint server for biology |
32637956 |
bioRxiv |
2020 Jun 30 |
https://www.ncbi.nlm.nih.gov/pubmed/32637956 |
| Association Between the Economic Environment and the Living Organ Donation Rate: Evidence and Implications. |
Lee SS, Sielski MW, Charpentier KP |
Journal of the American College of Surgeons |
33197569 |
J Am Coll Surg |
2021 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/33197569 |
| A Novel Machine Learning Model Developed to Assist in Patient Selection for Outpatient Total Shoulder Arthroplasty. |
Biron DR, Sinha I, Kleiner JE, Aluthge DP, Goodman AD, Sarkar IN, Cohen E, Daniels AH |
The Journal of the American Academy of Orthopaedic Surgeons |
31663914 |
J Am Acad Orthop Surg |
2020 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31663914 |
| Machine Learning Offers Exciting Potential for Predicting Postprocedural Outcomes: A Framework for Developing Random Forest Models in IR. |
Sinha I, Aluthge DP, Chen ES, Sarkar IN, Ahn SH |
Journal of vascular and interventional radiology : JVIR |
32376173 |
J Vasc Interv Radiol |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/32376173 |
| Mental Health Comorbidity Analysis in Pediatric Patients with Autism Spectrum Disorder Using Rhode Island Medical Claims Data. |
Brown KA, Sarkar IN, Chen ES |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
33936398 |
AMIA Annu Symp Proc |
2020 |
https://www.ncbi.nlm.nih.gov/pubmed/33936398 |
| Analysis of associations between emotions and activities of drug users and their addiction recovery tendencies from social media posts using structural equation modeling. |
Jha D, Singh R |
BMC bioinformatics |
33375934 |
BMC Bioinformatics |
2020 Dec 30 |
https://www.ncbi.nlm.nih.gov/pubmed/33375934 |
| Social Media Activism and Convergence in Tweet Topics After the Initial #MeToo Movement for Two Distinct Groups of Twitter Users. |
Baik JM, Nyein TH, Modrek S |
Journal of interpersonal violence |
33840303 |
J Interpers Violence |
2022 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/33840303 |
| Associations between forensic loci and expression levels of neighboring genes may compromise medical privacy. |
Bañuelos MM, Zavaleta YJA, Roldan A, Reyes RJ, Guardado M, Chavez Rojas B, Nyein T, Rodriguez Vega A, Santos M, Huerta-Sanchez E, Rohlfs RV |
Proceedings of the National Academy of Sciences of the United States of America |
36166477 |
Proc Natl Acad Sci U S A |
2022 Oct 4 |
https://www.ncbi.nlm.nih.gov/pubmed/36166477 |
| Ten simple rules for an inclusive summer coding program for non-computer-science undergraduates. |
Pennings P, Banuelos MM, Catalan FL, Caudill VR, Chakalov B, Hernandez S, Jones J, Okorie C, Modrek S, Rohlfs R, Adelstein N |
PLoS computational biology |
32881872 |
PLoS Comput Biol |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32881872 |
| SMARTS: the social media-based addiction recovery and intervention targeting server. |
Jha D, Singh R |
Bioinformatics (Oxford, England) |
31647520 |
Bioinformatics |
2019 Oct 24 |
https://www.ncbi.nlm.nih.gov/pubmed/31647520 |
| Contraception information on the websites of student health centers in the United States. |
Kakar V, Kulkarni A, Holschuh C, Smirnova A, Modrek S |
Contraception |
35085543 |
Contraception |
2022 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/35085543 |
| Trends in psychiatric diagnoses by COVID-19 infection and hospitalization among patients with and without recent clinical psychiatric diagnoses in New York city from March 2020 to August 2021. |
Xiao Y, Sharma MM, Thiruvalluru RK, Gimbrone C, Weissman MM, Olfson M, Keyes KM, Pathak J |
Translational psychiatry |
36414624 |
Transl Psychiatry |
2022 Nov 21 |
https://www.ncbi.nlm.nih.gov/pubmed/36414624 |
| Deep significance clustering: a novel approach for identifying risk-stratified and predictive patient subgroups. |
Huang Y, Liu Y, Steel PAD, Axsom KM, Lee JR, Tummalapalli SL, Wang F, Pathak J, Subramanian L, Zhang Y |
Journal of the American Medical Informatics Association : JAMIA |
34571540 |
J Am Med Inform Assoc |
2021 Nov 25 |
https://www.ncbi.nlm.nih.gov/pubmed/34571540 |
| Extracting social determinants of health from electronic health records using natural language processing: a systematic review. |
Patra BG, Sharma MM, Vekaria V, Adekkanattu P, Patterson OV, Glicksberg B, Lepow LA, Ryu E, Biernacka JM, Furmanchuk A, George TJ, Hogan W, Wu Y, Yang X, Bian J, Weissman M, Wickramaratne P, Mann JJ, Olfson M, Campion TR, Weiner M, Pathak J |
Journal of the American Medical Informatics Association : JAMIA |
34613399 |
J Am Med Inform Assoc |
2021 Nov 25 |
https://www.ncbi.nlm.nih.gov/pubmed/34613399 |
| SillyPutty: Improved clustering by optimizing the silhouette width. |
Bombina P, Tally D, Abrams ZB, Coombes KR |
bioRxiv : the preprint server for biology |
37986817 |
bioRxiv |
2023 Nov 11 |
https://www.ncbi.nlm.nih.gov/pubmed/37986817 |
| Pattern recognition in lymphoid malignancies using CytoGPS and Mercator. |
Abrams ZB, Tally DG, Zhang L, Coombes CE, Payne PRO, Abruzzo LV, Coombes KR |
BMC bioinformatics |
33648439 |
BMC Bioinformatics |
2021 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/33648439 |
| RCytoGPS: an R package for reading and visualizing cytogenetics data. |
Abrams ZB, Tally DG, Abruzzo LV, Coombes KR |
Bioinformatics (Oxford, England) |
34601554 |
Bioinformatics |
2021 Dec 7 |
https://www.ncbi.nlm.nih.gov/pubmed/34601554 |
| Pro-SMP finder-A systematic approach for discovering small membrane proteins in prokaryotes. |
Hoffman T, Kinne J, Cho KH |
PloS one |
38422081 |
PLoS One |
2024 |
https://www.ncbi.nlm.nih.gov/pubmed/38422081 |
| Developing a Suite of Online Learning Modules on the Components of Next-Generation Sequencing Projects. |
Wright RA |
Medical reference services quarterly |
32069203 |
Med Ref Serv Q |
2020 Jan-Mar |
https://www.ncbi.nlm.nih.gov/pubmed/32069203 |
| Anticipating innovations in structural biology. |
Berman HM, Lawson CL, Vallat B, Gabanyi MJ |
Quarterly reviews of biophysics |
30912485 |
Q Rev Biophys |
2018 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/30912485 |
| A two-tiered curriculum to improve data management practices for researchers. |
Read KB, Larson C, Gillespie C, Oh SY, Surkis A |
PloS one |
31042776 |
PLoS One |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31042776 |
| A model for initiating research data management services at academic libraries. |
Read KB, Koos J, Miller RS, Miller CF, Phillips GA, Scheinfeld L, Surkis A |
Journal of the Medical Library Association : JMLA |
31258450 |
J Med Libr Assoc |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/31258450 |
| Characterising omission errors in everyday task completion and cognitive correlates in individuals with mild cognitive impairment and dementia. |
Beaver J, Wilson KB, Schmitter-Edgecombe M |
Neuropsychological rehabilitation |
28617099 |
Neuropsychol Rehabil |
2019 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/28617099 |
| Iterative Design of Visual Analytics for a Clinician-in-the-Loop Smart Home. |
Ghods A, Caffrey K, Lin B, Fraga K, Fritz R, Schmitter-Edgecombe M, Hundhausen C, Cook DJ |
IEEE journal of biomedical and health informatics |
30106700 |
IEEE J Biomed Health Inform |
2019 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/30106700 |
| Using Smart City Technology to Make Healthcare Smarter. |
Cook DJ, Duncan G, Sprint G, Fritz R |
Proceedings of the IEEE. Institute of Electrical and Electronics Engineers |
29628528 |
Proc IEEE Inst Electr Electron Eng |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29628528 |
| sMRT: Multi-Resident Tracking in Smart Homes With Sensor Vectorization. |
Wang T, Cook DJ |
IEEE transactions on pattern analysis and machine intelligence |
32070942 |
IEEE Trans Pattern Anal Mach Intell |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/32070942 |
| Interpreting Health Events in Big Data Using Qualitative Traditions. |
Fritz RL, Dermody G |
International journal of qualitative methods |
33790703 |
Int J Qual Methods |
2020 Jan-Dec |
https://www.ncbi.nlm.nih.gov/pubmed/33790703 |
| Creating a digital memory notebook application for individuals with mild cognitive impairment to support everyday functioning. |
Raghunath N, Dahmen J, Brown K, Cook D, Schmitter-Edgecombe M |
Disability and rehabilitation. Assistive technology |
30907223 |
Disabil Rehabil Assist Technol |
2020 May |
https://www.ncbi.nlm.nih.gov/pubmed/30907223 |
| SynSys: A Synthetic Data Generation System for Healthcare Applications. |
Dahmen J, Cook D |
Sensors (Basel, Switzerland) |
30857130 |
Sensors (Basel) |
2019 Mar 8 |
https://www.ncbi.nlm.nih.gov/pubmed/30857130 |
| A conceptual framework for clinicians working with artificial intelligence and health-assistive Smart Homes. |
Dermody G, Fritz R |
Nursing inquiry |
30417510 |
Nurs Inq |
2019 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/30417510 |
| Context-Aware Delivery of Ecological Momentary Assessment. |
Aminikhanghahi S, Schmitter-Edgecombe M, Cook DJ |
IEEE journal of biomedical and health informatics |
31443058 |
IEEE J Biomed Health Inform |
2020 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31443058 |
| Indirectly-Supervised Anomaly Detection of Clinically-Meaningful Health Events from Smart Home Data. |
Dahmen J, Cook DJ |
ACM transactions on intelligent systems and technology |
34336375 |
ACM Trans Intell Syst Technol |
2021 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/34336375 |
| Implementing Wearable Sensors for Continuous Assessment of Daytime Heart Rate Response in Inpatient Rehabilitation. |
Weeks DL, Sprint GL, Stilwill V, Meisen-Vehrs AL, Cook DJ |
Telemedicine journal and e-health : the official journal of the American Telemedicine Association |
29608421 |
Telemed J E Health |
2018 Apr 2 |
https://www.ncbi.nlm.nih.gov/pubmed/29608421 |
| A Survey of Unsupervised Deep Domain Adaptation. |
Wilson G, Cook DJ |
ACM transactions on intelligent systems and technology |
34336374 |
ACM Trans Intell Syst Technol |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/34336374 |
| Memory-Aware Active Learning in Mobile Sensing Systems. |
Ashari ZE, Chaytor NS, Cook DJ, Ghasemzadeh H |
IEEE transactions on mobile computing |
34970086 |
IEEE Trans Mob Comput |
2022 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/34970086 |
| Effects of initial planning on task execution performance of older adults: A naturalistic assessment paradigm. |
Brown KD, Schmitter-Edgecombe M |
Journal of clinical and experimental neuropsychology |
31658865 |
J Clin Exp Neuropsychol |
2020 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/31658865 |
| Robot-Enabled Support of Daily Activities in Smart Home Environments. |
Wilson G, Pereyda C, Raghunath N, de la Cruz G, Goel S, Nesaei S, Minor B, Schmitter-Edgecombe M, Taylor ME, Cook DJ |
Cognitive systems research |
31565029 |
Cogn Syst Res |
2019 May |
https://www.ncbi.nlm.nih.gov/pubmed/31565029 |
| A nurse-driven method for developing artificial intelligence in "smart" homes for aging-in-place. |
Fritz RL, Dermody G |
Nursing outlook |
30551883 |
Nurs Outlook |
2019 Mar-Apr |
https://www.ncbi.nlm.nih.gov/pubmed/30551883 |
| Prompting Technology and Persons With Dementia: The Significance of Context and Communication. |
Braley R, Fritz R, Van Son CR, Schmitter-Edgecombe M |
The Gerontologist |
29897450 |
Gerontologist |
2019 Jan 9 |
https://www.ncbi.nlm.nih.gov/pubmed/29897450 |
| Learning Activity Predictors from Sensor Data: Algorithms, Evaluation, and Applications. |
Minor B, Doppa JR, Cook DJ |
IEEE transactions on knowledge and data engineering |
29456436 |
IEEE Trans Knowl Data Eng |
2017 Dec 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29456436 |
| Behavioral Differences Between Subject Groups Identified Using Smart Homes and Change Point Detection. |
Sprint G, Cook DJ, Fritz R |
IEEE journal of biomedical and health informatics |
32750924 |
IEEE J Biomed Health Inform |
2021 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/32750924 |
| A structured model for immune exposures. |
Vita R, Overton JA, Dunn P, Cheung KH, Kleinstein SH, Sette A, Peters B |
Database : the journal of biological databases and curation |
32283555 |
Database (Oxford) |
2020 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32283555 |
| Reporting and connecting cell type names and gating definitions through ontologies. |
Overton JA, Vita R, Dunn P, Burel JG, Bukhari SAC, Cheung KH, Kleinstein SH, Diehl AD, Peters B |
BMC bioinformatics |
31272390 |
BMC Bioinformatics |
2019 Apr 25 |
https://www.ncbi.nlm.nih.gov/pubmed/31272390 |
| GOnet: a tool for interactive Gene Ontology analysis. |
Pomaznoy M, Ha B, Peters B |
BMC bioinformatics |
30526489 |
BMC Bioinformatics |
2018 Dec 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30526489 |
| Standardization of assay representation in the Ontology for Biomedical Investigations. |
Vita R, Zheng J, Jackson R, Dooley D, Overton JA, Miller MA, Berrios DC, Scheuermann RH, He Y, McGinty HK, Brochhausen M, Lin AY, Jain SB, Chibucos MC, Judkins J, Giglio MG, Feng IY, Burns G, Brush MH, Peters B, Stoeckert CJ Jr |
Database : the journal of biological databases and curation |
34244718 |
Database (Oxford) |
2021 Jul 9 |
https://www.ncbi.nlm.nih.gov/pubmed/34244718 |
| Minimal Information about MHC Multimers (MIAMM). |
Vita R, Mody A, Overton JA, Buus S, Haley ST, Sette A, Mallajosyula V, Davis MM, Long DL, Willis RA, Peters B, Altman JD |
Journal of immunology (Baltimore, Md. : 1950) |
35042788 |
J Immunol |
2022 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/35042788 |
| FAIR principles and the IEDB: short-term improvements and a long-term vision of OBO-foundry mediated machine-actionable interoperability. |
Vita R, Overton JA, Mungall CJ, Sette A, Peters B |
Database : the journal of biological databases and curation |
29688354 |
Database (Oxford) |
2018 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/29688354 |
| OBO Foundry in 2021: operationalizing open data principles to evaluate ontologies. |
Jackson R, Matentzoglu N, Overton JA, Vita R, Balhoff JP, Buttigieg PL, Carbon S, Courtot M, Diehl AD, Dooley DM, Duncan WD, Harris NL, Haendel MA, Lewis SE, Natale DA, Osumi-Sutherland D, Ruttenberg A, Schriml LM, Smith B, Stoeckert CJ Jr, Vasilevsky NA, Walls RL, Zheng J, Mungall CJ, Peters B |
Database : the journal of biological databases and curation |
34697637 |
Database (Oxford) |
2021 Oct 26 |
https://www.ncbi.nlm.nih.gov/pubmed/34697637 |
| ProteinExplorer: A Repository-Scale Resource for Exploration of Protein Detection in Public Mass Spectrometry Data Sets. |
Pullman BS, Wertz J, Carver J, Bandeira N |
Journal of proteome research |
30985146 |
J Proteome Res |
2018 Dec 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30985146 |
| MassIVE.quant: a community resource of quantitative mass spectrometry-based proteomics datasets. |
Choi M, Carver J, Chiva C, Tzouros M, Huang T, Tsai TH, Pullman B, Bernhardt OM, Hüttenhain R, Teo GC, Perez-Riverol Y, Muntel J, Müller M, Goetze S, Pavlou M, Verschueren E, Wollscheid B, Nesvizhskii AI, Reiter L, Dunkley T, Sabidó E, Bandeira N, Vitek O |
Nature methods |
32929271 |
Nat Methods |
2020 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/32929271 |
| mzTab-M: A Data Standard for Sharing Quantitative Results in Mass Spectrometry Metabolomics. |
Hoffmann N, Rein J, Sachsenberg T, Hartler J, Haug K, Mayer G, Alka O, Dayalan S, Pearce JTM, Rocca-Serra P, Qi D, Eisenacher M, Perez-Riverol Y, Vizcaíno JA, Salek RM, Neumann S, Jones AR |
Analytical chemistry |
30688441 |
Anal Chem |
2019 Mar 5 |
https://www.ncbi.nlm.nih.gov/pubmed/30688441 |
| The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics. |
Deutsch EW, Bandeira N, Sharma V, Perez-Riverol Y, Carver JJ, Kundu DJ, García-Seisdedos D, Jarnuczak AF, Hewapathirana S, Pullman BS, Wertz J, Sun Z, Kawano S, Okuda S, Watanabe Y, Hermjakob H, MacLean B, MacCoss MJ, Zhu Y, Ishihama Y, Vizcaíno JA |
Nucleic acids research |
31686107 |
Nucleic Acids Res |
2020 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/31686107 |
| Advances and Utility of the Human Plasma Proteome. |
Deutsch EW, Omenn GS, Sun Z, Maes M, Pernemalm M, Palaniappan KK, Letunica N, Vandenbrouck Y, Brun V, Tao SC, Yu X, Geyer PE, Ignjatovic V, Moritz RL, Schwenk JM |
Journal of proteome research |
34672606 |
J Proteome Res |
2021 Dec 3 |
https://www.ncbi.nlm.nih.gov/pubmed/34672606 |
| Proteomics Standards Initiative at Twenty Years: Current Activities and Future Work. |
Deutsch EW, Vizcaíno JA, Jones AR, Binz PA, Lam H, Klein J, Bittremieux W, Perez-Riverol Y, Tabb DL, Walzer M, Ricard-Blum S, Hermjakob H, Neumann S, Mak TD, Kawano S, Mendoza L, Van Den Bossche T, Gabriels R, Bandeira N, Carver J, Pullman B, Sun Z, Hoffmann N, Shofstahl J, Zhu Y, Licata L, Quaglia F, Tosatto SCE, Orchard SE |
Journal of proteome research |
36626722 |
J Proteome Res |
2023 Feb 3 |
https://www.ncbi.nlm.nih.gov/pubmed/36626722 |
| The ProteomeXchange consortium in 2026: making proteomics data FAIR. |
Deutsch EW, Bandeira N, Perez-Riverol Y, Sharma V, Carver JJ, Mendoza L, Kundu DJ, Bandla C, Kamatchinathan S, Hewapathirana S, Sun Z, Kawano S, Okuda S, Connolly B, MacLean B, MacCoss MJ, Chen T, Zhu Y, Ishihama Y, Vizcaíno JA |
Nucleic acids research |
41206473 |
Nucleic Acids Res |
2026 Jan 6 |
https://www.ncbi.nlm.nih.gov/pubmed/41206473 |
| Mass Spectrometry-Based Plasma Proteomics: Considerations from Sample Collection to Achieving Translational Data. |
Ignjatovic V, Geyer PE, Palaniappan KK, Chaaban JE, Omenn GS, Baker MS, Deutsch EW, Schwenk JM |
Journal of proteome research |
31573204 |
J Proteome Res |
2019 Dec 6 |
https://www.ncbi.nlm.nih.gov/pubmed/31573204 |
| Quick-start infrastructure for untargeted metabolomics analysis in GNPS. |
Leao TF, Clark CM, Bauermeister A, Elijah EO, Gentry EC, Husband M, Oliveira MF, Bandeira N, Wang M, Dorrestein PC |
Nature metabolism |
34244695 |
Nat Metab |
2021 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/34244695 |
| Proteomics Standards Initiative's ProForma 2.0: Unifying the Encoding of Proteoforms and Peptidoforms. |
LeDuc RD, Deutsch EW, Binz PA, Fellers RT, Cesnik AJ, Klein JA, Van Den Bossche T, Gabriels R, Yalavarthi A, Perez-Riverol Y, Carver J, Bittremieux W, Kawano S, Pullman B, Bandeira N, Kelleher NL, Thomas PM, Vizcaíno JA |
Journal of proteome research |
35290070 |
J Proteome Res |
2022 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/35290070 |
| The ProteomeXchange consortium at 10 years: 2023 update. |
Deutsch EW, Bandeira N, Perez-Riverol Y, Sharma V, Carver JJ, Mendoza L, Kundu DJ, Wang S, Bandla C, Kamatchinathan S, Hewapathirana S, Pullman BS, Wertz J, Sun Z, Kawano S, Okuda S, Watanabe Y, MacLean B, MacCoss MJ, Zhu Y, Ishihama Y, Vizcaíno JA |
Nucleic acids research |
36370099 |
Nucleic Acids Res |
2023 Jan 6 |
https://www.ncbi.nlm.nih.gov/pubmed/36370099 |
| The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences. |
Perez-Riverol Y, Bai J, Bandla C, García-Seisdedos D, Hewapathirana S, Kamatchinathan S, Kundu DJ, Prakash A, Frericks-Zipper A, Eisenacher M, Walzer M, Wang S, Brazma A, Vizcaíno JA |
Nucleic acids research |
34723319 |
Nucleic Acids Res |
2022 Jan 7 |
https://www.ncbi.nlm.nih.gov/pubmed/34723319 |
| Is DIA proteomics data FAIR? Current data sharing practices, available bioinformatics infrastructure and recommendations for the future. |
Jones AR, Deutsch EW, Vizcaíno JA |
Proteomics |
36074795 |
Proteomics |
2023 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/36074795 |
| GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser. |
Petras D, Phelan VV, Acharya D, Allen AE, Aron AT, Bandeira N, Bowen BP, Belle-Oudry D, Boecker S, Cummings DA Jr, Deutsch JM, Fahy E, Garg N, Gregor R, Handelsman J, Navarro-Hoyos M, Jarmusch AK, Jarmusch SA, Louie K, Maloney KN, Marty MT, Meijler MM, Mizrahi I, Neve RL, Northen TR, Molina-Santiago C, Panitchpakdi M, Pullman B, Puri AW, Schmid R, Subramaniam S, Thukral M, Vasquez-Castro F, Dorrestein PC, Wang M |
Nature methods |
34862502 |
Nat Methods |
2022 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/34862502 |
| Comprehensive Overview of Bottom-Up Proteomics Using Mass Spectrometry. |
Jiang Y, Rex DAB, Schuster D, Neely BA, Rosano GL, Volkmar N, Momenzadeh A, Peters-Clarke TM, Egbert SB, Kreimer S, Doud EH, Crook OM, Yadav AK, Vanuopadath M, Hegeman AD, Mayta ML, Duboff AG, Riley NM, Moritz RL, Meyer JG |
ACS measurement science au |
39193565 |
ACS Meas Sci Au |
2024 Aug 21 |
https://www.ncbi.nlm.nih.gov/pubmed/39193565 |
| The 2023 Report on the Proteome from the HUPO Human Proteome Project. |
Omenn GS, Lane L, Overall CM, Lindskog C, Pineau C, Packer NH, Cristea IM, Weintraub ST, Orchard S, Roehrl MHA, Nice E, Guo T, Van Eyk JE, Liu S, Bandeira N, Aebersold R, Moritz RL, Deutsch EW |
Journal of proteome research |
38232391 |
J Proteome Res |
2024 Feb 2 |
https://www.ncbi.nlm.nih.gov/pubmed/38232391 |
| Trans-Proteomic Pipeline: Robust Mass Spectrometry-Based Proteomics Data Analysis Suite. |
Deutsch EW, Mendoza L, Shteynberg DD, Hoopmann MR, Sun Z, Eng JK, Moritz RL |
Journal of proteome research |
36648445 |
J Proteome Res |
2023 Feb 3 |
https://www.ncbi.nlm.nih.gov/pubmed/36648445 |
| ProteomicsML: An Online Platform for Community-Curated Data sets and Tutorials for Machine Learning in Proteomics. |
Rehfeldt TG, Gabriels R, Bouwmeester R, Gessulat S, Neely BA, Palmblad M, Perez-Riverol Y, Schmidt T, Vizcaíno JA, Deutsch EW |
Journal of proteome research |
36693629 |
J Proteome Res |
2023 Feb 3 |
https://www.ncbi.nlm.nih.gov/pubmed/36693629 |
| A wide-ranging Pseudomonas aeruginosa PeptideAtlas build: A useful proteomic resource for a versatile pathogen. |
Reales-Calderón JA, Sun Z, Mascaraque V, Pérez-Navarro E, Vialás V, Deutsch EW, Moritz RL, Gil C, Martínez JL, Molero G |
Journal of proteomics |
33757883 |
J Proteomics |
2021 May 15 |
https://www.ncbi.nlm.nih.gov/pubmed/33757883 |
| Standardized annotation of translated open reading frames. |
Mudge JM, Ruiz-Orera J, Prensner JR, Brunet MA, Calvet F, Jungreis I, Gonzalez JM, Magrane M, Martinez TF, Schulz JF, Yang YT, Albà MM, Aspden JL, Baranov PV, Bazzini AA, Bruford E, Martin MJ, Calviello L, Carvunis AR, Chen J, Couso JP, Deutsch EW, Flicek P, Frankish A, Gerstein M, Hubner N, Ingolia NT, Kellis M, Menschaert G, Moritz RL, Ohler U, Roucou X, Saghatelian A, Weissman JS, van Heesch S |
Nature biotechnology |
35831657 |
Nat Biotechnol |
2022 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/35831657 |
| Method for Independent Estimation of the False Localization Rate for Phosphoproteomics. |
Ramsbottom KA, Prakash A, Riverol YP, Camacho OM, Martin MJ, Vizcaíno JA, Deutsch EW, Jones AR |
Journal of proteome research |
35640880 |
J Proteome Res |
2022 Jul 1 |
https://www.ncbi.nlm.nih.gov/pubmed/35640880 |
| The 2022 Report on the Human Proteome from the HUPO Human Proteome Project. |
Omenn GS, Lane L, Overall CM, Pineau C, Packer NH, Cristea IM, Lindskog C, Weintraub ST, Orchard S, Roehrl MHA, Nice E, Liu S, Bandeira N, Chen YJ, Guo T, Aebersold R, Moritz RL, Deutsch EW |
Journal of proteome research |
36318223 |
J Proteome Res |
2023 Apr 7 |
https://www.ncbi.nlm.nih.gov/pubmed/36318223 |
| Feature-based molecular networking in the GNPS analysis environment. |
Nothias LF, Petras D, Schmid R, Dührkop K, Rainer J, Sarvepalli A, Protsyuk I, Ernst M, Tsugawa H, Fleischauer M, Aicheler F, Aksenov AA, Alka O, Allard PM, Barsch A, Cachet X, Caraballo-Rodriguez AM, Da Silva RR, Dang T, Garg N, Gauglitz JM, Gurevich A, Isaac G, Jarmusch AK, Kameník Z, Kang KB, Kessler N, Koester I, Korf A, Le Gouellec A, Ludwig M, Martin H C, McCall LI, McSayles J, Meyer SW, Mohimani H, Morsy M, Moyne O, Neumann S, Neuweger H, Nguyen NH, Nothias-Esposito M, Paolini J, Phelan VV, Pluskal T, Quinn RA, Rogers S, Shrestha B, Tripathi A, van der Hooft JJJ, Vargas F, Weldon KC, Witting M, Yang H, Zhang Z, Zubeil F, Kohlbacher O, Böcker S, Alexandrov T, Bandeira N, Wang M, Dorrestein PC |
Nature methods |
32839597 |
Nat Methods |
2020 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/32839597 |
| mzMLb: A Future-Proof Raw Mass Spectrometry Data Format Based on Standards-Compliant mzML and Optimized for Speed and Storage Requirements. |
Bhamber RS, Jankevics A, Deutsch EW, Jones AR, Dowsey AW |
Journal of proteome research |
32864978 |
J Proteome Res |
2021 Jan 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32864978 |
| Protein Inference Using PIA Workflows and PSI Standard File Formats. |
Uszkoreit J, Perez-Riverol Y, Eggers B, Marcus K, Eisenacher M |
Journal of proteome research |
30474983 |
J Proteome Res |
2019 Feb 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30474983 |
| The PRIDE database and related tools and resources in 2019: improving support for quantification data. |
Perez-Riverol Y, Csordas A, Bai J, Bernal-Llinares M, Hewapathirana S, Kundu DJ, Inuganti A, Griss J, Mayer G, Eisenacher M, Pérez E, Uszkoreit J, Pfeuffer J, Sachsenberg T, Yilmaz S, Tiwary S, Cox J, Audain E, Walzer M, Jarnuczak AF, Ternent T, Brazma A, Vizcaíno JA |
Nucleic acids research |
30395289 |
Nucleic Acids Res |
2019 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/30395289 |
| Extending Comet for Global Amino Acid Variant and Post-Translational Modification Analysis Using the PSI Extended FASTA Format. |
Eng JK, Deutsch EW |
Proteomics |
32106352 |
Proteomics |
2020 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/32106352 |
| Data Management of Sensitive Human Proteomics Data: Current Practices, Recommendations, and Perspectives for the Future. |
Bandeira N, Deutsch EW, Kohlbacher O, Martens L, Vizcaíno JA |
Molecular & cellular proteomics : MCP |
33711481 |
Mol Cell Proteomics |
2021 |
https://www.ncbi.nlm.nih.gov/pubmed/33711481 |
| A tissue-based draft map of the murine MHC class I immunopeptidome. |
Schuster H, Shao W, Weiss T, Pedrioli PGA, Roth P, Weller M, Campbell DS, Deutsch EW, Moritz RL, Planz O, Rammensee HG, Aebersold R, Caron E |
Scientific data |
30084848 |
Sci Data |
2018 Aug 7 |
https://www.ncbi.nlm.nih.gov/pubmed/30084848 |
| Minimal Information About an Immuno-Peptidomics Experiment (MIAIPE). |
Lill JR, van Veelen PA, Tenzer S, Admon A, Caron E, Elias JE, Heck AJR, Marcilla M, Marino F, Müller M, Peters B, Purcell A, Sette A, Sturm T, Ternette N, Vizcaíno JA, Bassani-Sternberg M |
Proteomics |
29791771 |
Proteomics |
2018 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29791771 |
| A high-stringency blueprint of the human proteome. |
Adhikari S, Nice EC, Deutsch EW, Lane L, Omenn GS, Pennington SR, Paik YK, Overall CM, Corrales FJ, Cristea IM, Van Eyk JE, Uhlén M, Lindskog C, Chan DW, Bairoch A, Waddington JC, Justice JL, LaBaer J, Rodriguez H, He F, Kostrzewa M, Ping P, Gundry RL, Stewart P, Srivastava S, Srivastava S, Nogueira FCS, Domont GB, Vandenbrouck Y, Lam MPY, Wennersten S, Vizcaino JA, Wilkins M, Schwenk JM, Lundberg E, Bandeira N, Marko-Varga G, Weintraub ST, Pineau C, Kusebauch U, Moritz RL, Ahn SB, Palmblad M, Snyder MP, Aebersold R, Baker MS |
Nature communications |
33067450 |
Nat Commun |
2020 Oct 16 |
https://www.ncbi.nlm.nih.gov/pubmed/33067450 |
| Insights from the First Phosphopeptide Challenge of the MS Resource Pillar of the HUPO Human Proteome Project. |
Hoopmann MR, Kusebauch U, Palmblad M, Bandeira N, Shteynberg DD, He L, Xia B, Stoychev SH, Omenn GS, Weintraub ST, Moritz RL |
Journal of proteome research |
33166149 |
J Proteome Res |
2020 Dec 4 |
https://www.ncbi.nlm.nih.gov/pubmed/33166149 |
| Research on the Human Proteome Reaches a Major Milestone: >90% of Predicted Human Proteins Now Credibly Detected, According to the HUPO Human Proteome Project. |
Omenn GS, Lane L, Overall CM, Cristea IM, Corrales FJ, Lindskog C, Paik YK, Van Eyk JE, Liu S, Pennington SR, Snyder MP, Baker MS, Bandeira N, Aebersold R, Moritz RL, Deutsch EW |
Journal of proteome research |
32931287 |
J Proteome Res |
2020 Dec 4 |
https://www.ncbi.nlm.nih.gov/pubmed/32931287 |
| Universal Spectrum Identifier for mass spectra. |
Deutsch EW, Perez-Riverol Y, Carver J, Kawano S, Mendoza L, Van Den Bossche T, Gabriels R, Binz PA, Pullman B, Sun Z, Shofstahl J, Bittremieux W, Mak TD, Klein J, Zhu Y, Lam H, Vizcaíno JA, Bandeira N |
Nature methods |
34183830 |
Nat Methods |
2021 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/34183830 |
| Progress Identifying and Analyzing the Human Proteome: 2021 Metrics from the HUPO Human Proteome Project. |
Omenn GS, Lane L, Overall CM, Paik YK, Cristea IM, Corrales FJ, Lindskog C, Weintraub S, Roehrl MHA, Liu S, Bandeira N, Srivastava S, Chen YJ, Aebersold R, Moritz RL, Deutsch EW |
Journal of proteome research |
34670092 |
J Proteome Res |
2021 Dec 3 |
https://www.ncbi.nlm.nih.gov/pubmed/34670092 |
| Profiling the Human Phosphoproteome to Estimate the True Extent of Protein Phosphorylation. |
Kalyuzhnyy A, Eyers PA, Eyers CE, Bowler-Barnett E, Martin MJ, Sun Z, Deutsch EW, Jones AR |
Journal of proteome research |
35532924 |
J Proteome Res |
2022 Jun 3 |
https://www.ncbi.nlm.nih.gov/pubmed/35532924 |
| Correlation Analysis of Variables From the Atherosclerosis Risk in Communities Study. |
Mandal M, Levy J, Ives C, Hwang S, Zhou YH, Motsinger-Reif A, Pan H, Huggins W, Hamilton C, Wright F, Edwards S |
Frontiers in pharmacology |
35899108 |
Front Pharmacol |
2022 |
https://www.ncbi.nlm.nih.gov/pubmed/35899108 |
| An Assessment of Environmental Health Measures in the Deepwater Horizon Research Consortia. |
Pan H, Edwards SW, Ives C, Covert H, Harville EW, Lichtveld MY, Wickliffe JK, Hamilton CM |
Current opinion in toxicology |
32457927 |
Curr Opin Toxicol |
2019 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/32457927 |
| Self-reported oil spill exposure and birth outcomes among southern Louisiana women at the time of the Gulf oil spill: The GROWH study. |
Harville EW, Shankar A, Buekens P, Wickliffe JK, Lichtveld MY |
International journal of hygiene and environmental health |
34450543 |
Int J Hyg Environ Health |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/34450543 |
| Linking complex disease and exposure data-insights from an environmental and occupational health study. |
Ives C, Pan H, Edwards SW, Nelms M, Covert H, Lichtveld MY, Harville EW, Wickliffe JK, Zijlmans W, Hamilton CM |
Journal of exposure science & environmental epidemiology |
35347232 |
J Expo Sci Environ Epidemiol |
2023 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/35347232 |
| The digital biomarker discovery pipeline: An open-source software platform for the development of digital biomarkers using mHealth and wearables data. |
Bent B, Wang K, Grzesiak E, Jiang C, Qi Y, Jiang Y, Cho P, Zingler K, Ogbeide FI, Zhao A, Runge R, Sim I, Dunn J |
Journal of clinical and translational science |
33948242 |
J Clin Transl Sci |
2020 Jul 14 |
https://www.ncbi.nlm.nih.gov/pubmed/33948242 |
| Standardized Integration of Person-Generated Data Into Routine Clinical Care. |
Zeng B, Bove R, Carini S, Lee JS, Pollak JP, Schleimer E, Sim I |
JMIR mHealth and uHealth |
35142627 |
JMIR Mhealth Uhealth |
2022 Feb 10 |
https://www.ncbi.nlm.nih.gov/pubmed/35142627 |
| Digital Medicine Community Perspectives and Challenges: Survey Study. |
Bent B, Sim I, Dunn JP |
JMIR mHealth and uHealth |
33533721 |
JMIR Mhealth Uhealth |
2021 Feb 3 |
https://www.ncbi.nlm.nih.gov/pubmed/33533721 |
| eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks. |
Clarke DJB, Kuleshov MV, Schilder BM, Torre D, Duffy ME, Keenan AB, Lachmann A, Feldmann AS, Gundersen GW, Silverstein MC, Wang Z, Ma'ayan A |
Nucleic acids research |
29800326 |
Nucleic Acids Res |
2018 Jul 2 |
https://www.ncbi.nlm.nih.gov/pubmed/29800326 |
| BioJupies: Automated Generation of Interactive Notebooks for RNA-Seq Data Analysis in the Cloud. |
Torre D, Lachmann A, Ma'ayan A |
Cell systems |
30447998 |
Cell Syst |
2018 Nov 28 |
https://www.ncbi.nlm.nih.gov/pubmed/30447998 |
| Drug Gene Budger (DGB): an application for ranking drugs to modulate a specific gene based on transcriptomic signatures. |
Wang Z, He E, Sani K, Jagodnik KM, Silverstein MC, Ma'ayan A |
Bioinformatics (Oxford, England) |
30169739 |
Bioinformatics |
2019 Apr 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30169739 |
| ChEA3: transcription factor enrichment analysis by orthogonal omics integration. |
Keenan AB, Torre D, Lachmann A, Leong AK, Wojciechowicz ML, Utti V, Jagodnik KM, Kropiwnicki E, Wang Z, Ma'ayan A |
Nucleic acids research |
31114921 |
Nucleic Acids Res |
2019 Jul 2 |
https://www.ncbi.nlm.nih.gov/pubmed/31114921 |
| Predicting opioid dependence from electronic health records with machine learning. |
Ellis RJ, Wang Z, Genes N, Ma'ayan A |
BioData mining |
30728857 |
BioData Min |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30728857 |
| EnrichrBot: Twitter bot tracking tweets about human genes. |
Bartal A, Lachmann A, Clarke DJB, Seiden AH, Jagodnik KM, Ma'ayan A |
Bioinformatics (Oxford, England) |
32277816 |
Bioinformatics |
2020 Jun 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32277816 |
| Datasets2Tools, repository and search engine for bioinformatics datasets, tools and canned analyses. |
Torre D, Krawczuk P, Jagodnik KM, Lachmann A, Wang Z, Wang L, Kuleshov MV, Ma'ayan A |
Scientific data |
29485625 |
Sci Data |
2018 Feb 27 |
https://www.ncbi.nlm.nih.gov/pubmed/29485625 |
| A design framework and exemplar metrics for FAIRness. |
Wilkinson MD, Sansone SA, Schultes E, Doorn P, Bonino da Silva Santos LO, Dumontier M |
Scientific data |
29944145 |
Sci Data |
2018 Jun 26 |
https://www.ncbi.nlm.nih.gov/pubmed/29944145 |
| The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations. |
Keenan AB, Jenkins SL, Jagodnik KM, Koplev S, He E, Torre D, Wang Z, Dohlman AB, Silverstein MC, Lachmann A, Kuleshov MV, Ma'ayan A, Stathias V, Terryn R, Cooper D, Forlin M, Koleti A, Vidovic D, Chung C, Schürer SC, Vasiliauskas J, Pilarczyk M, Shamsaei B, Fazel M, Ren Y, Niu W, Clark NA, White S, Mahi N, Zhang L, Kouril M, Reichard JF, Sivaganesan S, Medvedovic M, Meller J, Koch RJ, Birtwistle MR, Iyengar R, Sobie EA, Azeloglu EU, Kaye J, Osterloh J, Haston K, Kalra J, Finkbiener S, Li J, Milani P, Adam M, Escalante-Chong R, Sachs K, Lenail A, Ramamoorthy D, Fraenkel E, Daigle G, Hussain U, Coye A, Rothstein J, Sareen D, Ornelas L, Banuelos M, Mandefro B, Ho R, Svendsen CN, Lim RG, Stocksdale J, Casale MS, Thompson TG, Wu J, Thompson LM, Dardov V, Venkatraman V, Matlock A, Van Eyk JE, Jaffe JD, Papanastasiou M, Subramanian A, Golub TR, Erickson SD, Fallahi-Sichani M, Hafner M, Gray NS, Lin JR, Mills CE, Muhlich JL, Niepel M, Shamu CE, Williams EH, Wrobel D, Sorger PK, Heiser LM, Gray JW, Korkola JE, Mills GB, LaBarge M, Feiler HS, Dane MA, Bucher E, Nederlof M, Sudar D, Gross S, Kilburn DF, Smith R, Devlin K, Margolis R, Derr L, Lee A, Pillai A |
Cell systems |
29199020 |
Cell Syst |
2018 Jan 24 |
https://www.ncbi.nlm.nih.gov/pubmed/29199020 |
| Geneshot: search engine for ranking genes from arbitrary text queries. |
Lachmann A, Schilder BM, Wojciechowicz ML, Torre D, Kuleshov MV, Keenan AB, Ma'ayan A |
Nucleic acids research |
31114885 |
Nucleic Acids Res |
2019 Jul 2 |
https://www.ncbi.nlm.nih.gov/pubmed/31114885 |
| Mining data and metadata from the gene expression omnibus. |
Wang Z, Lachmann A, Ma'ayan A |
Biophysical reviews |
30594974 |
Biophys Rev |
2019 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/30594974 |
| Massive mining of publicly available RNA-seq data from human and mouse. |
Lachmann A, Torre D, Keenan AB, Jagodnik KM, Lee HJ, Wang L, Silverstein MC, Ma'ayan A |
Nature communications |
29636450 |
Nat Commun |
2018 Apr 10 |
https://www.ncbi.nlm.nih.gov/pubmed/29636450 |
| modEnrichr: a suite of gene set enrichment analysis tools for model organisms. |
Kuleshov MV, Diaz JEL, Flamholz ZN, Keenan AB, Lachmann A, Wojciechowicz ML, Cagan RL, Ma'ayan A |
Nucleic acids research |
31069376 |
Nucleic Acids Res |
2019 Jul 2 |
https://www.ncbi.nlm.nih.gov/pubmed/31069376 |
| FAIRshake: Toolkit to Evaluate the FAIRness of Research Digital Resources. |
Clarke DJB, Wang L, Jones A, Wojciechowicz ML, Torre D, Jagodnik KM, Jenkins SL, McQuilton P, Flamholz Z, Silverstein MC, Schilder BM, Robasky K, Castillo C, Idaszak R, Ahalt SC, Williams J, Schurer S, Cooper DJ, de Miranda Azevedo R, Klenk JA, Haendel MA, Nedzel J, Avillach P, Shimoyama ME, Harris RM, Gamble M, Poten R, Charbonneau AL, Larkin J, Brown CT, Bonazzi VR, Dumontier MJ, Sansone SA, Ma'ayan A |
Cell systems |
31677972 |
Cell Syst |
2019 Nov 27 |
https://www.ncbi.nlm.nih.gov/pubmed/31677972 |
| KEA3: improved kinase enrichment analysis via data integration. |
Kuleshov MV, Xie Z, London ABK, Yang J, Evangelista JE, Lachmann A, Shu I, Torre D, Ma'ayan A |
Nucleic acids research |
34019655 |
Nucleic Acids Res |
2021 Jul 2 |
https://www.ncbi.nlm.nih.gov/pubmed/34019655 |
| Scalability and cost-effectiveness analysis of whole genome-wide association studies on Google Cloud Platform and Amazon Web Services. |
Krissaane I, De Niz C, Gutiérrez-Sacristán A, Korodi G, Ede N, Kumar R, Lyons J, Manrai A, Patel C, Kohane I, Avillach P |
Journal of the American Medical Informatics Association : JAMIA |
32719837 |
J Am Med Inform Assoc |
2020 Sep 1 |
https://www.ncbi.nlm.nih.gov/pubmed/32719837 |
| Framing the challenges of artificial intelligence in medicine. |
Yu KH, Kohane IS |
BMJ quality & safety |
30291179 |
BMJ Qual Saf |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30291179 |
| Artificial intelligence in healthcare. |
Yu KH, Beam AL, Kohane IS |
Nature biomedical engineering |
31015651 |
Nat Biomed Eng |
2018 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/31015651 |
| Reproducible Machine Learning Methods for Lung Cancer Detection Using Computed Tomography Images: Algorithm Development and Validation. |
Yu KH, Lee TM, Yen MH, Kou SC, Rosen B, Chiang JH, Kohane IS |
Journal of medical Internet research |
32755895 |
J Med Internet Res |
2020 Aug 5 |
https://www.ncbi.nlm.nih.gov/pubmed/32755895 |
| dbgap2x: an R package to explore and extract data from the database of Genotypes and Phenotypes (dbGaP). |
Versmée G, Versmée L, Dusenne M, Jalali N, Avillach P |
Bioinformatics (Oxford, England) |
31504194 |
Bioinformatics |
2020 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/31504194 |
| Comparison of Smart Contract Blockchains for Healthcare Applications. |
Yu H, Sun H, Wu D, Kuo TT |
AMIA ... Annual Symposium proceedings. AMIA Symposium |
32308924 |
AMIA Annu Symp Proc |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/32308924 |
| Comparison of blockchain platforms: a systematic review and healthcare examples. |
Kuo TT, Zavaleta Rojas H, Ohno-Machado L |
Journal of the American Medical Informatics Association : JAMIA |
30907419 |
J Am Med Inform Assoc |
2019 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30907419 |
| Progress Toward Cancer Data Ecosystems. |
Grossman RL |
Cancer journal (Sudbury, Mass.) |
29794537 |
Cancer J |
2018 May/Jun |
https://www.ncbi.nlm.nih.gov/pubmed/29794537 |
| Data Lakes, Clouds, and Commons: A Review of Platforms for Analyzing and Sharing Genomic Data. |
Grossman RL |
Trends in genetics : TIG |
30691868 |
Trends Genet |
2019 Mar |
https://www.ncbi.nlm.nih.gov/pubmed/30691868 |
| HMPDACC: a Human Microbiome Project Multi-omic data resource. |
Creasy HH, Felix V, Aluvathingal J, Crabtree J, Ifeonu O, Matsumura J, McCracken C, Nickel L, Orvis J, Schor M, Giglio M, Mahurkar A, White O |
Nucleic acids research |
33305317 |
Nucleic Acids Res |
2021 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/33305317 |
| De novo mutations across 1,465 diverse genomes reveal mutational insights and reductions in the Amish founder population. |
Kessler MD, Loesch DP, Perry JA, Heard-Costa NL, Taliun D, Cade BE, Wang H, Daya M, Ziniti J, Datta S, Celedón JC, Soto-Quiros ME, Avila L, Weiss ST, Barnes K, Redline SS, Vasan RS, Johnson AD, Mathias RA, Hernandez R, Wilson JG, Nickerson DA, Abecasis G, Browning SR, Zöllner S, O'Connell JR, Mitchell BD, National Heart, Lung, and Blood Institute Trans-Omics for Precision Medicine (TOPMed) Consortium, TOPMed Population Genetics Working Group, O'Connor TD |
Proceedings of the National Academy of Sciences of the United States of America |
31964835 |
Proc Natl Acad Sci U S A |
2020 Feb 4 |
https://www.ncbi.nlm.nih.gov/pubmed/31964835 |
| Making Common Fund data more findable: catalyzing a data ecosystem. |
Charbonneau AL, Brady A, Czajkowski K, Aluvathingal J, Canchi S, Carter R, Chard K, Clarke DJB, Crabtree J, Creasy HH, D'Arcy M, Felix V, Giglio M, Gingrich A, Harris RM, Hodges TK, Ifeonu O, Jeon M, Kropiwnicki E, Lim MCW, Liming RL, Lumian J, Mahurkar AA, Mandal M, Munro JB, Nadendla S, Richter R, Romano C, Rocca-Serra P, Schor M, Schuler RE, Tangmunarunkit H, Waldrop A, Williams C, Word K, Sansone SA, Ma'ayan A, Wagner R, Foster I, Kesselman C, Brown CT, White O |
GigaScience |
36409836 |
Gigascience |
2022 Nov 21 |
https://www.ncbi.nlm.nih.gov/pubmed/36409836 |
| Getting Started with LINCS Datasets and Tools. |
Xie Z, Kropiwnicki E, Wojciechowicz ML, Jagodnik KM, Shu I, Bailey A, Clarke DJB, Jeon M, Evangelista JE, V Kuleshov M, Lachmann A, Parigi AA, Sanchez JM, Jenkins SL, Ma'ayan A |
Current protocols |
35876555 |
Curr Protoc |
2022 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/35876555 |
| Ancestral characterization of 1018 cancer cell lines highlights disparities and reveals gene expression and mutational differences. |
Kessler MD, Bateman NW, Conrads TP, Maxwell GL, Dunning Hotopp JC, O'Connor TD |
Cancer |
30865299 |
Cancer |
2019 Jun 15 |
https://www.ncbi.nlm.nih.gov/pubmed/30865299 |
| Prevalence of Inherited Mutations in Breast Cancer Predisposition Genes among Women in Uganda and Cameroon. |
Adedokun B, Zheng Y, Ndom P, Gakwaya A, Makumbi T, Zhou AY, Yoshimatsu TF, Rodriguez A, Madduri RK, Foster IT, Sallam A, Olopade OI, Huo D |
Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology |
31871109 |
Cancer Epidemiol Biomarkers Prev |
2020 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/31871109 |
| CUF-Links: Continuous and Ubiquitous FAIRness Linkages for reproducible research. |
Foster I, Kesselman C |
Computer |
35979414 |
Computer (Long Beach Calif) |
2022 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/35979414 |
| Sharing Begins at Home: How Continuous and Ubiquitous FAIRness Can Enhance Research Productivity and Data Reuse. |
Dempsey W, Foster I, Fraser S, Kesselman C |
Harvard data science review |
36035065 |
Harv Data Sci Rev |
2022 Summer |
https://www.ncbi.nlm.nih.gov/pubmed/36035065 |
| Identifiers.org: Compact Identifier services in the cloud. |
Bernal-Llinares M, Ferrer-Gómez J, Juty N, Goble C, Wimalaratne SM, Hermjakob H |
Bioinformatics (Oxford, England) |
33031499 |
Bioinformatics |
2021 Jul 19 |
https://www.ncbi.nlm.nih.gov/pubmed/33031499 |
| Building a collaborative cloud platform to accelerate heart, lung, blood, and sleep research. |
Ahalt S, Avillach P, Boyles R, Bradford K, Cox S, Davis-Dusenbery B, Grossman RL, Krishnamurthy A, Manning A, Paten B, Philippakis A, Borecki I, Chen SH, Kaltman J, Ladwa S, Schwartz C, Thomson A, Davis S, Leaf A, Lyons J, Sheets E, Bis JC, Conomos M, Culotti A, Desain T, Digiovanna J, Domazet M, Gogarten S, Gutierrez-Sacristan A, Harris T, Heavner B, Jain D, O'Connor B, Osborn K, Pillion D, Pleiness J, Rice K, Rupp G, Serret-Larmande A, Smith A, Stedman JP, Stilp A, Barsanti T, Cheadle J, Erdmann C, Farlow B, Gartland-Gray A, Hayes J, Hiles H, Kerr P, Lenhardt C, Madden T, Mieczkowska JO, Miller A, Patton P, Rathbun M, Suber S, Asare J |
Journal of the American Medical Informatics Association : JAMIA |
37192819 |
J Am Med Inform Assoc |
2023 Jun 20 |
https://www.ncbi.nlm.nih.gov/pubmed/37192819 |
| Investigating Gene-Diet Interactions Impacting the Association Between Macronutrient Intake and Glycemic Traits. |
Westerman KE, Walker ME, Gaynor SM, Wessel J, DiCorpo D, Ma J, Alonso A, Aslibekyan S, Baldridge AS, Bertoni AG, Biggs ML, Brody JA, Chen YI, Dupuis J, Goodarzi MO, Guo X, Hasbani NR, Heath A, Hidalgo B, Irvin MR, Johnson WC, Kalyani RR, Lange L, Lemaitre RN, Liu CT, Liu S, Moon JY, Nassir R, Pankow JS, Pettinger M, Raffield LM, Rasmussen-Torvik LJ, Selvin E, Senn MK, Shadyab AH, Smith AV, Smith NL, Steffen L, Talegakwar S, Taylor KD, de Vries PS, Wilson JG, Wood AC, Yanek LR, Yao J, Zheng Y, Boerwinkle E, Morrison AC, Fornage M, Russell TP, Psaty BM, Levy D, Heard-Costa NL, Ramachandran VS, Mathias RA, Arnett DK, Kaplan R, North KE, Correa A, Carson A, Rotter JI, Rich SS, Manson JE, Reiner AP, Kooperberg C, Florez JC, Meigs JB, Merino J, Tobias DK, Chen H, Manning AK |
Diabetes |
36791419 |
Diabetes |
2023 May 1 |
https://www.ncbi.nlm.nih.gov/pubmed/36791419 |
| Optimal gap-affine alignment in O(s) space. |
Marco-Sola S, Eizenga JM, Guarracino A, Paten B, Garrison E, Moreto M |
Bioinformatics (Oxford, England) |
36749013 |
Bioinformatics |
2023 Feb 3 |
https://www.ncbi.nlm.nih.gov/pubmed/36749013 |
| Phased nanopore assembly with Shasta and modular graph phasing with GFAse. |
Lorig-Roach R, Meredith M, Monlong J, Jain M, Olsen HE, McNulty B, Porubsky D, Montague TG, Lucas JK, Condon C, Eizenga JM, Juul S, McKenzie SK, Simmonds SE, Park J, Asri M, Koren S, Eichler EE, Axel R, Martin B, Carnevali P, Miga KH, Paten B |
Genome research |
38627094 |
Genome Res |
2024 Apr 25 |
https://www.ncbi.nlm.nih.gov/pubmed/38627094 |
| STRling: a k-mer counting approach that detects short tandem repeat expansions at known and novel loci. |
Dashnow H, Pedersen BS, Hiatt L, Brown J, Beecroft SJ, Ravenscroft G, LaCroix AJ, Lamont P, Roxburgh RH, Rodrigues MJ, Davis M, Mefford HC, Laing NG, Quinlan AR |
Genome biology |
36517892 |
Genome Biol |
2022 Dec 14 |
https://www.ncbi.nlm.nih.gov/pubmed/36517892 |
| Metagenomic Study of the MESA: Detection of Gemella Morbillorum and Association With Coronary Heart Disease. |
Taylor KD, Wood AC, Rotter JI, Guo X, Herrington DM, Johnson WC, Post WS, Tracy RP, Rich SS, Malik S |
Journal of the American Heart Association |
39344648 |
J Am Heart Assoc |
2024 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/39344648 |
| Making genomic data FAIR through effective Data Portals. |
Speir ML, Teh WK, Perry MD, Schwartz R, Nejad P, Harris T, Fischer C, Diekhans M, Lee BT, Paten B, Kent WJ, Haeussler M |
Scientific data |
41315456 |
Sci Data |
2025 Nov 28 |
https://www.ncbi.nlm.nih.gov/pubmed/41315456 |
| A complete pedigree-based graph workflow for rare candidate variant analysis. |
Markello C, Huang C, Rodriguez A, Carroll A, Chang PC, Eizenga J, Markello T, Haussler D, Paten B |
Genome research |
35483961 |
Genome Res |
2022 May |
https://www.ncbi.nlm.nih.gov/pubmed/35483961 |
| Accelerated identification of disease-causing variants with ultra-rapid nanopore genome sequencing. |
Goenka SD, Gorzynski JE, Shafin K, Fisk DG, Pesout T, Jensen TD, Monlong J, Chang PC, Baid G, Bernstein JA, Christle JW, Dalton KP, Garalde DR, Grove ME, Guillory J, Kolesnikov A, Nattestad M, Ruzhnikov MRZ, Samadi M, Sethia A, Spiteri E, Wright CJ, Xiong K, Zhu T, Jain M, Sedlazeck FJ, Carroll A, Paten B, Ashley EA |
Nature biotechnology |
35347328 |
Nat Biotechnol |
2022 Jul |
https://www.ncbi.nlm.nih.gov/pubmed/35347328 |
| Genetic determinants of telomere length from 109,122 ancestrally diverse whole-genome sequences in TOPMed. |
Taub MA, Conomos MP, Keener R, Iyer KR, Weinstock JS, Yanek LR, Lane J, Miller-Fleming TW, Brody JA, Raffield LM, McHugh CP, Jain D, Gogarten SM, Laurie CA, Keramati A, Arvanitis M, Smith AV, Heavner B, Barwick L, Becker LC, Bis JC, Blangero J, Bleecker ER, Burchard EG, Celedón JC, Chang YPC, Custer B, Darbar D, de las Fuentes L, DeMeo DL, Freedman BI, Garrett ME, Gladwin MT, Heckbert SR, Hidalgo BA, Irvin MR, Islam T, Johnson WC, Kaab S, Launer L, Lee J, Liu S, Moscati A, North KE, Peyser PA, Rafaels N, Seidman C, Weeks DE, Wen F, Wheeler MM, Williams LK, Yang IV, Zhao W, Aslibekyan S, Auer PL, Bowden DW, Cade BE, Chen Z, Cho MH, Cupples LA, Curran JE, Daya M, Deka R, Eng C, Fingerlin TE, Guo X, Hou L, Hwang SJ, Johnsen JM, Kenny EE, Levin AM, Liu C, Minster RL, Naseri T, Nouraie M, Reupena MS, Sabino EC, Smith JA, Smith NL, Su JL, Taylor JG, Telen MJ, Tiwari HK, Tracy RP, White MJ, Zhang Y, Wiggins KL, Weiss ST, Vasan RS, Taylor KD, Sinner MF, Silverman EK, Shoemaker MB, Sheu WH, Sciurba F, Schwartz DA, Rotter JI, Roden D, Redline S, Raby BA, Psaty BM, Peralta JM, Palmer ND, Nekhai S, Montgomery CG, Mitchell BD, Meyers DA, McGarvey ST, NHLBI CARE Network, Mak AC, Loos RJ, Kumar R, Kooperberg C, Konkle BA, Kelly S, Kardia SL, Kaplan R, He J, Gui H, Gilliland FD, Gelb BD, Fornage M, Ellinor PT, de Andrade M, Correa A, Chen YI, Boerwinkle E, Barnes KC, Ashley-Koch AE, Arnett DK, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, TOPMed Hematology and Hemostasis Working Group, TOPMed Structural Variation Working Group, Laurie CC, Abecasis G, Nickerson DA, Wilson JG, Rich SS, Levy D, Ruczinski I, Aviv A, Blackwell TW, Thornton T, O'Connell J, Cox NJ, Perry JA, Armanios M, Battle A, Pankratz N, Reiner AP, Mathias RA |
Cell genomics |
35530816 |
Cell Genom |
2022 Jan 12 |
https://www.ncbi.nlm.nih.gov/pubmed/35530816 |
| Whole Genome Sequencing Based Analysis of Inflammation Biomarkers in the Trans-Omics for Precision Medicine (TOPMed) Consortium. |
Jiang MZ, Gaynor SM, Li X, Van Buren E, Stilp A, Buth E, Wang FF, Manansala R, Gogarten SM, Li Z, Polfus LM, Salimi S, Bis JC, Pankratz N, Yanek LR, Durda P, Tracy RP, Rich SS, Rotter JI, Mitchell BD, Lewis JP, Psaty BM, Pratte KA, Silverman EK, Kaplan RC, Avery C, North K, Mathias RA, Faraday N, Lin H, Wang B, Carson AP, Norwood AF, Gibbs RA, Kooperberg C, Lundin J, Peters U, Dupuis J, Hou L, Fornage M, Benjamin EJ, Reiner AP, Bowler RP, Lin X, Auer PL, Raffield LM, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, TOPMed Inflammation Working Group |
bioRxiv : the preprint server for biology |
37745480 |
bioRxiv |
2023 Sep 12 |
https://www.ncbi.nlm.nih.gov/pubmed/37745480 |
| Multiethnic genome-wide and HLA association study of total serum IgE level. |
Daya M, Cox C, Acevedo N, Boorgula MP, Campbell M, Chavan S, Cho MH, David GL, Kachroo P, Lasky-Su J, Li X, McHugh CP, Qiao D, Rafaels N, Beck LA, Bleecker ER, Caraballo L, Cupples AL, Figueiredo CA, Gallo RL, Hanifin J, Hansel NN, Hata TR, Hersh CP, Knight-Madden J, Leung DYM, Guttman-Yassky E, Meyers DA, O'Connor G, Ober C, Ong PY, Ortega VE, Paller AS, Putcha N, Reed RM, Schneider LC, Silverman EK, Slifka MK, Spergel JM, Vasan RS, Viaud-Martinez KA, Watson H, Weiss ST, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, Ruczinski I, Beaty TH, Mathias RA, Barnes KC |
The Journal of allergy and clinical immunology |
34536413 |
J Allergy Clin Immunol |
2021 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/34536413 |
| Pleiotropic modifiers of age-related diabetes and neonatal intestinal obstruction in cystic fibrosis. |
Aksit MA, Ling H, Pace RG, Raraigh KS, Onchiri F, Faino AV, Pagel K, Pugh E, Stilp AM, Sun Q, Blue EE, Wright FA, Zhou YH, Bamshad MJ, Gibson RL, Knowles MR, Cutting GR, Blackman SM, CF Genome Project |
American journal of human genetics |
36206743 |
Am J Hum Genet |
2022 Oct 6 |
https://www.ncbi.nlm.nih.gov/pubmed/36206743 |
| Personalized pangenome references. |
Sirén J, Eskandar P, Ungaro MT, Hickey G, Eizenga JM, Novak AM, Chang X, Chang PC, Kolmogorov M, Carroll A, Monlong J, Paten B |
Nature methods |
39261641 |
Nat Methods |
2024 Nov |
https://www.ncbi.nlm.nih.gov/pubmed/39261641 |
| Whole genome sequencing based analysis of inflammation biomarkers in the Trans-Omics for Precision Medicine (TOPMed) consortium. |
Jiang MZ, Gaynor SM, Li X, Van Buren E, Stilp A, Buth E, Wang FF, Manansala R, Gogarten SM, Li Z, Polfus LM, Salimi S, Bis JC, Pankratz N, Yanek LR, Durda P, Tracy RP, Rich SS, Rotter JI, Mitchell BD, Lewis JP, Psaty BM, Pratte KA, Silverman EK, Kaplan RC, Avery C, North KE, Mathias RA, Faraday N, Lin H, Wang B, Carson AP, Norwood AF, Gibbs RA, Kooperberg C, Lundin J, Peters U, Dupuis J, Hou L, Fornage M, Benjamin EJ, Reiner AP, Bowler RP, Lin X, Auer PL, Raffield LM, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, TOPMed Inflammation Working Group |
Human molecular genetics |
38747556 |
Hum Mol Genet |
2024 Aug 6 |
https://www.ncbi.nlm.nih.gov/pubmed/38747556 |
| Cross-Ancestry Comparison of Aptamer and Antibody Proteomics Measures. |
Nicholas JC, Katz DH, Tahir UA, Debban CL, Aguet F, Blackwell T, Bowler RP, Broadaway KA, Chen J, Clish CB, Coresh J, Cornell E, Cruz DE, Deo R, Doyle MF, Durda P, Ekunwe L, Floyd JS, Gill D, Guo X, Hoogeveen RC, Johnson C, Lange LA, Li Y, Manning A, Meigs JB, Mi MY, Mychaleckyj JC, Olson NC, Pratte KA, Psaty BM, Reiner AP, Ruan P, Sevilla-Gonzalez M, Shah AM, Sun Q, Tracy RP, Wen J, Wood AC, Wilson JG, Young KL, Yu B, Rooney MR, Manichaikul A, Dubin R, Mohlke KL, Rich SS, Rotter JI, Ganz P, Gerszten RE, Taylor KD, Raffield LM |
Research square |
39989965 |
Res Sq |
2025 Feb 13 |
https://www.ncbi.nlm.nih.gov/pubmed/39989965 |
| Concerted modification of nucleotides at functional centers of the ribosome revealed by single-molecule RNA modification profiling. |
Bailey AD, Talkish J, Ding H, Igel H, Duran A, Mantripragada S, Paten B, Ares M |
eLife |
35384842 |
Elife |
2022 Apr 6 |
https://www.ncbi.nlm.nih.gov/pubmed/35384842 |
| Pangenomics enables genotyping of known structural variants in 5202 diverse genomes. |
Sirén J, Monlong J, Chang X, Novak AM, Eizenga JM, Markello C, Sibbesen JA, Hickey G, Chang PC, Carroll A, Gupta N, Gabriel S, Blackwell TW, Ratan A, Taylor KD, Rich SS, Rotter JI, Haussler D, Garrison E, Paten B |
Science (New York, N.Y.) |
34914532 |
Science |
2021 Dec 17 |
https://www.ncbi.nlm.nih.gov/pubmed/34914532 |
| Genetic Modifiers of Cystic Fibrosis Lung Disease Severity: Whole-Genome Analysis of 7,840 Patients. |
Zhou YH, Gallins PJ, Pace RG, Dang H, Aksit MA, Blue EE, Buckingham KJ, Collaco JM, Faino AV, Gordon WW, Hetrick KN, Ling H, Liu W, Onchiri FM, Pagel K, Pugh EW, Raraigh KS, Rosenfeld M, Sun Q, Wen J, Li Y, Corvol H, Strug LJ, Bamshad MJ, Blackman SM, Cutting GR, Gibson RL, O'Neal WK, Wright FA, Knowles MR |
American journal of respiratory and critical care medicine |
36921087 |
Am J Respir Crit Care Med |
2023 May 15 |
https://www.ncbi.nlm.nih.gov/pubmed/36921087 |
| Local read haplotagging enables accurate long-read small variant calling. |
Kolesnikov A, Cook D, Nattestad M, McNulty B, Gorzynski J, Goenka S, Ashley EA, Jain M, Miga KH, Paten B, Chang PC, Carroll A, Shafin K |
bioRxiv : the preprint server for biology |
37745389 |
bioRxiv |
2023 Sep 12 |
https://www.ncbi.nlm.nih.gov/pubmed/37745389 |
| Scalable Nanopore sequencing of human genomes provides a comprehensive view of haplotype-resolved variation and methylation. |
Kolmogorov M, Billingsley KJ, Mastoras M, Meredith M, Monlong J, Lorig-Roach R, Asri M, Jerez PA, Malik L, Dewan R, Reed X, Genner RM, Daida K, Behera S, Shafin K, Pesout T, Prabakaran J, Carnevali P, North American Brain Expression Consortium (NABEC), Yang J, Rhie A, Scholz SW, Traynor BJ, Miga KH, Jain M, Timp W, Phillippy AM, Chaisson M, Sedlazeck FJ, Blauwendraat C, Paten B |
bioRxiv : the preprint server for biology |
36711673 |
bioRxiv |
2023 Apr 5 |
https://www.ncbi.nlm.nih.gov/pubmed/36711673 |
| Pangenome graph construction from genome alignments with Minigraph-Cactus. |
Hickey G, Monlong J, Ebler J, Novak AM, Eizenga JM, Gao Y, Human Pangenome Reference Consortium, Marschall T, Li H, Paten B |
Nature biotechnology |
37165083 |
Nat Biotechnol |
2024 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/37165083 |
| Whole genome sequencing identifies structural variants contributing to hematologic traits in the NHLBI TOPMed program. |
Wheeler MM, Stilp AM, Rao S, Halldórsson BV, Beyter D, Wen J, Mihkaylova AV, McHugh CP, Lane J, Jiang MZ, Raffield LM, Jun G, Sedlazeck FJ, Metcalf G, Yao Y, Bis JB, Chami N, de Vries PS, Desai P, Floyd JS, Gao Y, Kammers K, Kim W, Moon JY, Ratan A, Yanek LR, Almasy L, Becker LC, Blangero J, Cho MH, Curran JE, Fornage M, Kaplan RC, Lewis JP, Loos RJF, Mitchell BD, Morrison AC, Preuss M, Psaty BM, Rich SS, Rotter JI, Tang H, Tracy RP, Boerwinkle E, Abecasis GR, Blackwell TW, Smith AV, Johnson AD, Mathias RA, Nickerson DA, Conomos MP, Li Y, Þorsteinsdóttir U, Magnússon MK, Stefansson K, Pankratz ND, Bauer DE, Auer PL, Reiner AP |
Nature communications |
36481753 |
Nat Commun |
2022 Dec 8 |
https://www.ncbi.nlm.nih.gov/pubmed/36481753 |
| Phased nanopore assembly with Shasta and modular graph phasing with GFAse. |
Lorig-Roach R, Meredith M, Monlong J, Jain M, Olsen H, McNulty B, Porubsky D, Montague T, Lucas J, Condon C, Eizenga J, Juul S, McKenzie S, Simmonds SE, Park J, Asri M, Koren S, Eichler E, Axel R, Martin B, Carnevali P, Miga K, Paten B |
bioRxiv : the preprint server for biology |
36865218 |
bioRxiv |
2023 Feb 22 |
https://www.ncbi.nlm.nih.gov/pubmed/36865218 |
| The Dockstore: enhancing a community platform for sharing reproducible and accessible computational protocols. |
Yuen D, Cabansay L, Duncan A, Luu G, Hogue G, Overbeck C, Perez N, Shands W, Steinberg D, Reid C, Olunwa N, Hansen R, Sheets E, O'Farrell A, Cullion K, O'Connor BD, Paten B, Stein L |
Nucleic acids research |
33978761 |
Nucleic Acids Res |
2021 Jul 2 |
https://www.ncbi.nlm.nih.gov/pubmed/33978761 |
| Long-read sequencing of hundreds of diverse brains provides insight into the impact of structural variation on gene expression and DNA methylation. |
Billingsley KJ, Meredith M, Daida K, Jerez PA, Negi S, Malik L, Genner RM, Moller A, Zheng X, Gibson SB, Mastoras M, Baker B, Kouam C, Paquette K, Jarreau P, Makarious MB, Moore A, Hong S, Vitale D, Shah S, Monlong J, Pantazis CB, Asri M, Shafin K, Carnevali P, Marenco S, Auluck P, Mandal A, Miga KH, Rhie A, Reed X, Ding J, Cookson MR, Nalls M, Singleton A, Miller DE, Chaisson M, Timp W, Gibbs JR, Phillippy AM, Kolmogorov M, Jain M, Sedlazeck FJ, Paten B, Blauwendraat C |
bioRxiv : the preprint server for biology |
39764002 |
bioRxiv |
2024 Dec 17 |
https://www.ncbi.nlm.nih.gov/pubmed/39764002 |
| Leveraging TOPMed imputation server and constructing a cohort-specific imputation reference panel to enhance genotype imputation among cystic fibrosis patients. |
Sun Q, Liu W, Rosen JD, Huang L, Pace RG, Dang H, Gallins PJ, Blue EE, Ling H, Corvol H, Strug LJ, Bamshad MJ, Gibson RL, Pugh EW, Blackman SM, Cutting GR, O'Neal WK, Zhou YH, Wright FA, Knowles MR, Wen J, Li Y, Cystic Fibrosis Genome Project |
HGG advances |
35128485 |
HGG Adv |
2022 Apr 14 |
https://www.ncbi.nlm.nih.gov/pubmed/35128485 |
| An individualized Bayesian method for estimating genomic variants of hypertension. |
Rahman MA, Cai C, Bo N, McNamara DM, Ding Y, Cooper GF, Lu X, Liu J |
BMC genomics |
37936055 |
BMC Genomics |
2023 Nov 7 |
https://www.ncbi.nlm.nih.gov/pubmed/37936055 |
| Personalized Pangenome References. |
Sirén J, Eskandar P, Ungaro MT, Hickey G, Eizenga JM, Novak AM, Chang X, Chang PC, Kolmogorov M, Carroll A, Monlong J, Paten B |
bioRxiv : the preprint server for biology |
38168361 |
bioRxiv |
2023 Dec 15 |
https://www.ncbi.nlm.nih.gov/pubmed/38168361 |
| Direct estimation of regional lung volume change from paired and single CT images using residual regression neural network. |
Gerard SE, Chaudhary MFA, Herrmann J, Christensen GE, San José Estépar R, Reinhardt JM, Hoffman EA |
Medical physics |
36929883 |
Med Phys |
2023 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/36929883 |
| Deep learning on graphs for multi-omics classification of COPD. |
Zhuang Y, Xing F, Ghosh D, Hobbs BD, Hersh CP, Banaei-Kashani F, Bowler RP, Kechris K |
PloS one |
37083575 |
PLoS One |
2023 |
https://www.ncbi.nlm.nih.gov/pubmed/37083575 |
| GAWMerge expands GWAS sample size and diversity by combining array-based genotyping and whole-genome sequencing. |
Mathur R, Fang F, Gaddis N, Hancock DB, Cho MH, Hokanson JE, Bierut LJ, Lutz SM, Young K, Smith AV, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, Silverman EK, Page GP, Johnson EO |
Communications biology |
35953715 |
Commun Biol |
2022 Aug 11 |
https://www.ncbi.nlm.nih.gov/pubmed/35953715 |
| Association of Rare Protein-Truncating DNA Variants in APOB or PCSK9 With Low-density Lipoprotein Cholesterol Level and Risk of Coronary Heart Disease. |
Dron JS, Patel AP, Zhang Y, Jurgens SJ, Maamari DJ, Wang M, Boerwinkle E, Morrison AC, de Vries PS, Fornage M, Hou L, Lloyd-Jones DM, Psaty BM, Tracy RP, Bis JC, Vasan RS, Levy D, Heard-Costa N, Rich SS, Guo X, Taylor KD, Gibbs RA, Rotter JI, Willer CJ, Oelsner EC, Moran AE, Peloso GM, Natarajan P, Khera AV |
JAMA cardiology |
36723951 |
JAMA Cardiol |
2023 Mar 1 |
https://www.ncbi.nlm.nih.gov/pubmed/36723951 |
| Rare tandem repeat expansions associate with genes involved in synaptic and neuronal signaling functions in schizophrenia. |
Wen J, Trost B, Engchuan W, Halvorsen M, Pallotto LM, Mitina A, Ancalade N, Farrell M, Backstrom I, Guo K, Pellecchia G, Thiruvahindrapuram B, Giusti-Rodriguez P, Rosen JD, Li Y, Won H, Magnusson PKE, Gyllensten U, Bassett AS, Hultman CM, Sullivan PF, Yuen RKC, Szatkiewicz JP |
Molecular psychiatry |
36380236 |
Mol Psychiatry |
2023 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/36380236 |
| Scalable Nanopore sequencing of human genomes provides a comprehensive view of haplotype-resolved variation and methylation. |
Kolmogorov M, Billingsley KJ, Mastoras M, Meredith M, Monlong J, Lorig-Roach R, Asri M, Alvarez Jerez P, Malik L, Dewan R, Reed X, Genner RM, Daida K, Behera S, Shafin K, Pesout T, Prabakaran J, Carnevali P, Yang J, Rhie A, Scholz SW, Traynor BJ, Miga KH, Jain M, Timp W, Phillippy AM, Chaisson M, Sedlazeck FJ, Blauwendraat C, Paten B |
Nature methods |
37710018 |
Nat Methods |
2023 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/37710018 |
| Long-term Survival after Hematopoietic Cell Transplant for Sickle Cell Disease Compared to the United States Population. |
St Martin A, Hebert KM, Serret-Larmande A, Jouhet V, Hughes E, Stedman J, DeSain T, Pillion D, Lyons JC, Steinert P, Avillach P, Eapen M |
Transplantation and cellular therapy |
35302009 |
Transplant Cell Ther |
2022 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/35302009 |
| PIC-SURE: an open-source platform for integrating clinical and genomic data. |
Gutiérrez-Sacristán A, Hughes EE, Amari R, Colon G, DeSain TN, Neely S, Peck JT, Piatt S, Sikina L, Lyons J, Pillion D, Avillach P |
NPJ digital medicine |
41469802 |
NPJ Digit Med |
2025 Dec 30 |
https://www.ncbi.nlm.nih.gov/pubmed/41469802 |
| Dug: a semantic search engine leveraging peer-reviewed knowledge to query biomedical data repositories. |
Waldrop AM, Cheadle JB, Bradford K, Preiss A, Chew R, Holt JR, Kebede Y, Braswell N, Watson M, Hench V, Crerar A, Ball CM, Schreep C, Linebaugh PJ, Hiles H, Boyles R, Bizon C, Krishnamurthy A, Cox S |
Bioinformatics (Oxford, England) |
35441678 |
Bioinformatics |
2022 Jun 13 |
https://www.ncbi.nlm.nih.gov/pubmed/35441678 |
| DrugCentral 2018: an update. |
Ursu O, Holmes J, Bologa CG, Yang JJ, Mathias SL, Stathias V, Nguyen DT, Schürer S, Oprea T |
Nucleic acids research |
30371892 |
Nucleic Acids Res |
2019 Jan 8 |
https://www.ncbi.nlm.nih.gov/pubmed/30371892 |
| A Framework for the Interoperability of Cloud Platforms: Towards FAIR Data in SAFE Environments. |
Grossman RL, Boyles RR, Davis-Dusenbery BN, Haddock A, Heath AP, O'Connor BD, Resnick AC, Taylor DM, Ahalt S |
Scientific data |
38409183 |
Sci Data |
2024 Feb 26 |
https://www.ncbi.nlm.nih.gov/pubmed/38409183 |
| Pan-African genome demonstrates how population-specific genome graphs improve high-throughput sequencing data analysis. |
Tetikol HS, Turgut D, Narci K, Budak G, Kalay O, Arslan E, Demirkaya-Budak S, Dolgoborodov A, Kabakci-Zorlu D, Semenyuk V, Jain A, Davis-Dusenbery BN |
Nature communications |
35927245 |
Nat Commun |
2022 Aug 4 |
https://www.ncbi.nlm.nih.gov/pubmed/35927245 |
| Mapping and interpreting the dynamic connectivity of the brain. |
Chang C, Keilholz S, Miller R, Woolrich M |
NeuroImage |
30075278 |
Neuroimage |
2018 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/30075278 |
| Impaired vigilance networks in temporal lobe epilepsy: Mechanisms and clinical implications. |
Englot DJ, Morgan VL, Chang C |
Epilepsia |
31901182 |
Epilepsia |
2020 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/31901182 |
| Analysis of stimulus-induced brain dynamics during naturalistic paradigms. |
Simony E, Chang C |
NeuroImage |
31843711 |
Neuroimage |
2020 Aug 1 |
https://www.ncbi.nlm.nih.gov/pubmed/31843711 |
| All-night functional magnetic resonance imaging sleep studies. |
Moehlman TM, de Zwart JA, Chappel-Farley MG, Liu X, McClain IB, Chang C, Mandelkow H, Özbay PS, Johnson NL, Bieber RE, Fernandez KA, King KA, Zalewski CK, Brewer CC, van Gelderen P, Duyn JH, Picchioni D |
Journal of neuroscience methods |
30243817 |
J Neurosci Methods |
2019 Mar 15 |
https://www.ncbi.nlm.nih.gov/pubmed/30243817 |
| Time-resolved correlation of distributed brain activity tracks E-I balance and accounts for diverse scale-free phenomena. |
Nanda A, Johnson GW, Mu Y, Ahrens MB, Chang C, Englot DJ, Breakspear M, Rubinov M |
Cell reports |
36966391 |
Cell Rep |
2023 Apr 25 |
https://www.ncbi.nlm.nih.gov/pubmed/36966391 |
| Vigilance associates with the low-dimensional structure of fMRI data. |
Zhang S, Goodale SE, Gold BP, Morgan VL, Englot DJ, Chang C |
NeuroImage |
36535323 |
Neuroimage |
2023 Feb 15 |
https://www.ncbi.nlm.nih.gov/pubmed/36535323 |
| fMRI-based detection of alertness predicts behavioral response variability. |
Goodale SE, Ahmed N, Zhao C, de Zwart JA, Özbay PS, Picchioni D, Duyn J, Englot DJ, Morgan VL, Chang C |
eLife |
33960930 |
Elife |
2021 May 7 |
https://www.ncbi.nlm.nih.gov/pubmed/33960930 |
| Physiological changes in sleep that affect fMRI inference. |
Duyn JH, Ozbay PS, Chang C, Picchioni D |
Current opinion in behavioral sciences |
32613032 |
Curr Opin Behav Sci |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/32613032 |
| Resting-state "physiological networks". |
Chen JE, Lewis LD, Chang C, Tian Q, Fultz NE, Ohringer NA, Rosen BR, Polimeni JR |
NeuroImage |
32145437 |
Neuroimage |
2020 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/32145437 |
| Co-activation patterns in resting-state fMRI signals. |
Liu X, Zhang N, Chang C, Duyn JH |
NeuroImage |
29355767 |
Neuroimage |
2018 Oct 15 |
https://www.ncbi.nlm.nih.gov/pubmed/29355767 |
| Sympathetic activity contributes to the fMRI signal. |
Özbay PS, Chang C, Picchioni D, Mandelkow H, Chappel-Farley MG, van Gelderen P, de Zwart JA, Duyn J |
Communications biology |
31754651 |
Commun Biol |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/31754651 |
| Reconstruction of respiratory variation signals from fMRI data. |
Salas JA, Bayrak RG, Huo Y, Chang C |
NeuroImage |
33129927 |
Neuroimage |
2021 Jan 15 |
https://www.ncbi.nlm.nih.gov/pubmed/33129927 |
| Multimodal EEG-fMRI: advancing insight into large-scale human brain dynamics. |
Chang C, Chen JE |
Current opinion in biomedical engineering |
34095643 |
Curr Opin Biomed Eng |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/34095643 |
| Understanding the Hidden Complexity of Latin American Population Isolates. |
Mooney JA, Huber CD, Service S, Sul JH, Marsden CD, Zhang Z, Sabatti C, Ruiz-Linares A, Bedoya G, Costa Rica/Colombia Consortium for Genetic Investigation of Bipolar Endophenotypes, Freimer N, Lohmueller KE |
American journal of human genetics |
30401458 |
Am J Hum Genet |
2018 Nov 1 |
https://www.ncbi.nlm.nih.gov/pubmed/30401458 |
| Accurate diagnosis of atopic dermatitis by combining transcriptome and microbiota data with supervised machine learning. |
Jiang Z, Li J, Kong N, Kim JH, Kim BS, Lee MJ, Park YM, Lee SY, Hong SJ, Sul JH |
Scientific reports |
34997172 |
Sci Rep |
2022 Jan 7 |
https://www.ncbi.nlm.nih.gov/pubmed/34997172 |
| Rare variants regulate expression of nearby individual genes in multiple tissues. |
Li J, Kong N, Han B, Sul JH |
PLoS genetics |
34061836 |
PLoS Genet |
2021 Jun |
https://www.ncbi.nlm.nih.gov/pubmed/34061836 |
| xGAP: a python based efficient, modular, extensible and fault tolerant genomic analysis pipeline for variant discovery. |
Gorla A, Jew B, Zhang L, Sul JH |
Bioinformatics (Oxford, England) |
33416856 |
Bioinformatics |
2021 Apr 9 |
https://www.ncbi.nlm.nih.gov/pubmed/33416856 |
| An efficient linear mixed model framework for meta-analytic association studies across multiple contexts. |
Jew B, Li J, Sankararaman S, Sul JH |
Algorithms in bioinformatics : ... International Workshop, WABI ..., proceedings. WABI (Workshop) |
34335990 |
Algorithms Bioinform |
2021 |
https://www.ncbi.nlm.nih.gov/pubmed/34335990 |
| ForestQC: Quality control on genetic variants from next-generation sequencing data using random forest. |
Li J, Jew B, Zhan L, Hwang S, Coppola G, Freimer NB, Sul JH |
PLoS computational biology |
31851693 |
PLoS Comput Biol |
2019 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/31851693 |
| Contribution of common and rare variants to bipolar disorder susceptibility in extended pedigrees from population isolates. |
Sul JH, Service SK, Huang AY, Ramensky V, Hwang SG, Teshiba TM, Park Y, Ori APS, Zhang Z, Mullins N, Olde Loohuis LM, Fears SC, Araya C, Araya X, Spesny M, Bejarano J, Ramirez M, Castrillón G, Gomez-Makhinson J, Lopez MC, Montoya G, Montoya CP, Aldana I, Escobar JI, Ospina-Duque J, Kremeyer B, Bedoya G, Ruiz-Linares A, Cantor RM, Molina J, Coppola G, Ophoff RA, Macaya G, Lopez-Jaramillo C, Reus V, Bearden CE, Sabatti C, Freimer NB |
Translational psychiatry |
32094344 |
Transl Psychiatry |
2020 Feb 24 |
https://www.ncbi.nlm.nih.gov/pubmed/32094344 |
| Rare variants in the endocytic pathway are associated with Alzheimer's disease, its related phenotypes, and functional consequences. |
Zhan L, Li J, Jew B, Sul JH |
PLoS genetics |
34516545 |
PLoS Genet |
2021 Sep |
https://www.ncbi.nlm.nih.gov/pubmed/34516545 |
| Using indication embeddings to represent patient health for drug safety studies. |
Melamed RD |
JAMIA open |
33376961 |
JAMIA Open |
2020 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/33376961 |
| Shared genetics between breast cancer and predisposing diseases identifies novel breast cancer treatment candidates. |
Lalagkas PN, Melamed RD |
Research square |
38947022 |
Res Sq |
2024 Jun 21 |
https://www.ncbi.nlm.nih.gov/pubmed/38947022 |
| Shared etiology of Mendelian and complex disease supports drug discovery. |
Lalagkas PN, Melamed RD |
Research square |
38699347 |
Res Sq |
2024 Apr 19 |
https://www.ncbi.nlm.nih.gov/pubmed/38699347 |
| Shared genetics between breast cancer and predisposing diseases identifies novel breast cancer treatment candidates. |
Lalagkas PN, Melamed RD |
Human genomics |
39538313 |
Hum Genomics |
2024 Nov 14 |
https://www.ncbi.nlm.nih.gov/pubmed/39538313 |
| Patchwork of contrasting medication cultures across the USA. |
Melamed RD, Rzhetsky A |
Nature communications |
30301884 |
Nat Commun |
2018 Oct 9 |
https://www.ncbi.nlm.nih.gov/pubmed/30301884 |
| Multipollutant, longitudinal analysis of the association between urinary tungsten and incident diabetes in a rural population. |
Riseberg E, James KA, Woodin M, Melamed R, Alderete T, Corlin L |
Environmental epidemiology (Philadelphia, Pa.) |
34909553 |
Environ Epidemiol |
2021 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/34909553 |
| Shared etiology of Mendelian and complex disease supports drug discovery. |
Lalagkas PN, Melamed RD |
BMC medical genomics |
39256819 |
BMC Med Genomics |
2024 Sep 10 |
https://www.ncbi.nlm.nih.gov/pubmed/39256819 |
| Publisher Correction: Harnessing big 'omics' data and AI for drug discovery in hepatocellular carcinoma. |
Chen B, Garmire L, Calvisi DF, Chua MS, Kelley RK, Chen X |
Nature reviews. Gastroenterology & hepatology |
32161375 |
Nat Rev Gastroenterol Hepatol |
2020 Mar 11 |
https://www.ncbi.nlm.nih.gov/pubmed/32161375 |
| Analysis of Infected Host Gene Expression Reveals Repurposed Drug Candidates and Time-Dependent Host Response Dynamics for COVID-19. |
Xing J, Shankar R, Drelich A, Paithankar S, Chekalin E, Dexheimer T, Chua MS, Rajasekaran S, Tseng CK, Chen B |
bioRxiv : the preprint server for biology |
32511305 |
bioRxiv |
2020 Jun 13 |
https://www.ncbi.nlm.nih.gov/pubmed/32511305 |
| Ibrutinib Blocks YAP1 Activation and Reverses BRAF Inhibitor Resistance in Melanoma Cells. |
Misek SA, Newbury PA, Chekalin E, Paithankar S, Doseff AI, Chen B, Gallo KA, Neubig RR |
Molecular pharmacology |
34732527 |
Mol Pharmacol |
2022 Jan |
https://www.ncbi.nlm.nih.gov/pubmed/34732527 |
| Selecting precise reference normal tissue samples for cancer research using a deep learning approach. |
Zeng WZD, Glicksberg BS, Li Y, Chen B |
BMC medical genomics |
30704474 |
BMC Med Genomics |
2019 Jan 31 |
https://www.ncbi.nlm.nih.gov/pubmed/30704474 |
| Evaluating cell lines as models for metastatic breast cancer through integrative analysis of genomic data. |
Liu K, Newbury PA, Glicksberg BS, Zeng WZD, Paithankar S, Andrechek ER, Chen B |
Nature communications |
31092827 |
Nat Commun |
2019 May 15 |
https://www.ncbi.nlm.nih.gov/pubmed/31092827 |
| Author Correction: Experimental and real-world evidence supporting the computational repurposing of bumetanide for APOE4-related Alzheimer's disease. |
Taubes A, Nova P, Zalocusky KA, Kosti I, Bicak M, Zilberter MY, Hao Y, Yoon SY, Oskotsky T, Pineda S, Chen B, Aery Jones EA, Choudhary K, Grone B, Balestra ME, Chaudhry F, Paranjpe I, De Freitas J, Koutsodendris N, Chen N, Wang C, Chang W, An A, Glicksberg BS, Sirota M, Huang Y |
Nature aging |
37117528 |
Nat Aging |
2021 Dec |
https://www.ncbi.nlm.nih.gov/pubmed/37117528 |
| Deciphering COVID-19 host transcriptomic complexity and variations for therapeutic discovery against new variants. |
Xing J, Shankar R, Ko M, Zhang K, Zhang S, Drelich A, Paithankar S, Chekalin E, Chua MS, Rajasekaran S, Kent Tseng CT, Zheng M, Kim S, Chen B |
iScience |
36093376 |
iScience |
2022 Oct 21 |
https://www.ncbi.nlm.nih.gov/pubmed/36093376 |
| Experimental and real-world evidence supporting the computational repurposing of bumetanide for APOE4-related Alzheimer's disease. |
Taubes A, Nova P, Zalocusky KA, Kosti I, Bicak M, Zilberter MY, Hao Y, Yoon SY, Oskotsky T, Pineda S, Chen B, Jones EAA, Choudhary K, Grone B, Balestra ME, Chaudhry F, Paranjpe I, De Freitas J, Koutsodendris N, Chen N, Wang C, Chang W, An A, Glicksberg BS, Sirota M, Huang Y |
Nature aging |
36172600 |
Nat Aging |
2021 Oct |
https://www.ncbi.nlm.nih.gov/pubmed/36172600 |
| MoCL: Data-driven Molecular Fingerprint via Knowledge-aware Contrastive Learning from Molecular Graph. |
Sun M, Xing J, Wang H, Chen B, Zhou J |
KDD : proceedings. International Conference on Knowledge Discovery & Data Mining |
35571558 |
KDD |
2021 Aug |
https://www.ncbi.nlm.nih.gov/pubmed/35571558 |
| Harnessing big 'omics' data and AI for drug discovery in hepatocellular carcinoma. |
Chen B, Garmire L, Calvisi DF, Chua MS, Kelley RK, Chen X |
Nature reviews. Gastroenterology & hepatology |
31900465 |
Nat Rev Gastroenterol Hepatol |
2020 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/31900465 |
| Sex differences in viral entry protein expression and host transcript responses to SARS-CoV-2. |
Sun M, Shankar R, Ko M, Chang CD, Yeh SJ, Li S, Liu K, Zhou G, Xing J, VanVelsen A, VanVelsen T, Paithankar S, Feng BY, Young K, Strug M, Turco L, Wang Z, Schadt E, Chen R, Li X, Oskotsky T, Sirota M, Glicksberg BS, Nadkarni GN, Moeser AJ, Li L, Kim S, Zhou J, Chen B |
Research square |
33173861 |
Res Sq |
2020 Dec 31 |
https://www.ncbi.nlm.nih.gov/pubmed/33173861 |
| OCTAD: an open workspace for virtually screening therapeutics targeting precise cancer patient groups using gene expression features. |
Zeng B, Glicksberg BS, Newbury P, Chekalin E, Xing J, Liu K, Wen A, Chow C, Chen B |
Nature protocols |
33361798 |
Nat Protoc |
2021 Feb |
https://www.ncbi.nlm.nih.gov/pubmed/33361798 |
| Published Anti-SARS-CoV-2 In Vitro Hits Share Common Mechanisms of Action that Synergize with Antivirals. |
Xing J, Paithankar S, Liu K, Uhl K, Li X, Ko M, Kim S, Haskins J, Chen B |
bioRxiv : the preprint server for biology |
33688643 |
bioRxiv |
2021 Mar 4 |
https://www.ncbi.nlm.nih.gov/pubmed/33688643 |
| A single H/ACA small nucleolar RNA mediates tumor suppression downstream of oncogenic RAS. |
McMahon M, Contreras A, Holm M, Uechi T, Forester CM, Pang X, Jackson C, Calvert ME, Chen B, Quigley DA, Luk JM, Kelley RK, Gordan JD, Gill RM, Blanchard SC, Ruggero D |
eLife |
31478838 |
Elife |
2019 Sep 3 |
https://www.ncbi.nlm.nih.gov/pubmed/31478838 |
| AICM: A Genuine Framework for Correcting Inconsistency Between Large Pharmacogenomics Datasets. |
Hu ZT, Ye Y, Newbury PA, Huang H, Chen B |
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing |
30864327 |
Pac Symp Biocomput |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30864327 |
| Comprehensive transcriptomic analysis of cell lines as models of primary tumors across 22 tumor types. |
Yu K, Chen B, Aran D, Charalel J, Yau C, Wolf DM, van 't Veer LJ, Butte AJ, Goldstein T, Sirota M |
Nature communications |
31395879 |
Nat Commun |
2019 Aug 8 |
https://www.ncbi.nlm.nih.gov/pubmed/31395879 |
| Leveraging Big Data to Transform Drug Discovery. |
Glicksberg BS, Li L, Chen R, Dudley J, Chen B |
Methods in molecular biology (Clifton, N.J.) |
30848458 |
Methods Mol Biol |
2019 |
https://www.ncbi.nlm.nih.gov/pubmed/30848458 |
| Hippo Cascade Controls Lineage Commitment of Liver Tumors in Mice and Humans. |
Zhang S, Wang J, Wang H, Fan L, Fan B, Zeng B, Tao J, Li X, Che L, Cigliano A, Ribback S, Dombrowski F, Chen B, Cong W, Wei L, Calvisi DF, Chen X |
The American journal of pathology |
29378174 |
Am J Pathol |
2018 Apr |
https://www.ncbi.nlm.nih.gov/pubmed/29378174 |
| Published anti-SARS-CoV-2 in vitro hits share common mechanisms of action that synergize with antivirals. |
Xing J, Paithankar S, Liu K, Uhl K, Li X, Ko M, Kim S, Haskins J, Chen B |
Briefings in bioinformatics |
34245241 |
Brief Bioinform |
2021 Nov 5 |
https://www.ncbi.nlm.nih.gov/pubmed/34245241 |
| Reversal of cancer gene expression identifies repurposed drugs for diffuse intrinsic pontine glioma. |
Zhao G, Newbury P, Ishi Y, Chekalin E, Zeng B, Glicksberg BS, Wen A, Paithankar S, Sasaki T, Suri A, Nazarian J, Pacold ME, Brat DJ, Nicolaides T, Chen B, Hashizume R |
Acta neuropathologica communications |
36274161 |
Acta Neuropathol Commun |
2022 Oct 23 |
https://www.ncbi.nlm.nih.gov/pubmed/36274161 |
| TransCell: In Silico Characterization of Genomic Landscape and Cellular Responses by Deep Transfer Learning. |
Yeh SJ, Paithankar S, Chen R, Xing J, Sun M, Liu K, Zhou J, Chen B |
Genomics, proteomics & bioinformatics |
39240541 |
Genomics Proteomics Bioinformatics |
2024 Jul 3 |
https://www.ncbi.nlm.nih.gov/pubmed/39240541 |