Genotype-Tissue Expression (GTEx) (247)
Publication TitleAuthorsJournalPublication DatePage NoPubMedID
Mendelian randomization studies of cancer risk: a literature review.Pierce, Brandon L; Kraft, Peter; Zhang, ChenanCurrent epidemiology reports.2018 Jun;30034993
ROP: dumpster diving in RNA-sequencing to find the source of 1 trillion reads across diverse adult human tissues.Mangul, Serghei; Yang, Harry Taegyun; Strauli, Nicolas; Gruhl, Franziska; Porath, Hagit T; Hsieh, Kevin; Chen, Linus; Daley, Timothy; Christenson, Stephanie; Wesolowska-Andersen, Agata; Spreafico, Roberto; Rios, Cydney; Eng, Celeste; Smith, Andrew D; Hernandez, Ryan D; Ophoff, Roel A; Santana, Jose Rodriguez; Levanon, Erez Y; Woodruff, Prescott G; Burchard, Esteban; Seibold, Max A; Shifman, Sagiv; Eskin, Eleazar; Zaitlen, NoahGenome biology.2018 Feb 15;29548336
A novel pooled-sample multiplex luminex assay for high-throughput measurement of relative telomere length.Jasmine, Farzana; Shinkle, Justin; Sabarinathan, Mekala; Ahsan, Habibul; Pierce, Brandon L; Kibriya, Muhammad GAmerican journal of human biology : the official journal of the Human Biology Council.2018 Mar 12;29527774
Bipolar disorder with binge eating behavior: a genome-wide association study implicates PRR5-ARHGAP8.McElroy, Susan L; Winham, Stacey J; Cuellar-Barboza, Alfredo B; Colby, Colin L; Ho, Ada Man-Choi; Sicotte, Hugues; Larrabee, Beth R; Crow, Scott; Frye, Mark A; Biernacka, Joanna MTranslational psychiatry.2018 Feb 02;29391396
Genetic variation in theNEIL2DNA glycosylase gene is associated with oxidative DNA damage inBRCA2mutation carriers.Benítez-Buelga, Carlos; Baquero, Juan Miguel; Vaclova, Tereza; Fernández, Victoria; Martín, Paloma; Inglada-Perez, Lucia; Urioste, Miguel; Osorio, Ana; Benítez, JavierOncotarget.2017 Dec 29;29383107
Gene and MicroRNA Perturbations of Cellular Response to Pemetrexed Implicate Biological Networks and Enable Imputation of Response in Lung Adenocarcinoma.Gamazon, Eric R; Trendowski, Matthew R; Wen, Yujia; Wing, Claudia; Delaney, Shannon M; Huh, Won; Wong, Shan; Cox, Nancy J; Dolan, M EileenScientific reports.2018 Jan 15;29335598
Genetic association with B-cell acute lymphoblastic leukemia in allogeneic transplant patients differs by age and sex.Clay-Gilmour, Alyssa I; Hahn, Theresa; Preus, Leah M; Onel, Kenan; Skol, Andrew; Hungate, Eric; Zhu, Qianqian; Haiman, Christopher A; Stram, Daniel O; Pooler, Loreall; Sheng, Xin; Yan, Li; Liu, Qian; Hu, Qiang; Liu, Song; Battaglia, Sebastiano; Zhu, Xiaochun; Block, AnneMarie W; Sait, Sheila N J; Karaesmen, Ezgi; Rizvi, Abbas; Weisdorf, Daniel J; Ambrosone, Christine B; Tritchler, David; Ellinghaus, Eva; Ellinghaus, David; Stanulla, Martin; Clavel, Jacqueline; Orsi, Laurent; Spellman, Stephen; Pasquini, Marcelo C; McCarthy, Philip L; Sucheston-Campbell, Lara EBlood advances.2017 Sep 12;29296818
Impact of regulatory variation across human iPSCs and differentiated cells.Banovich, Nicholas E; Li, Yang I; Raj, Anil; Ward, Michelle C; Greenside, Peyton; Calderon, Diego; Tung, Po Yuan; Burnett, Jonathan E; Myrthil, Marsha; Thomas, Samantha M; Burrows, Courtney K; Romero, Irene Gallego; Pavlovic, Bryan J; Kundaje, Anshul; Pritchard, Jonathan K; Gilad, YoavGenome research.2018 01;29208628
Cohort-specific imputation of gene expression improves prediction of warfarin dose for African Americans.Gottlieb, Assaf; Daneshjou, Roxana; DeGorter, Marianne; Bourgeois, Stephane; Svensson, Peter J; Wadelius, Mia; Deloukas, Panos; Montgomery, Stephen B; Altman, Russ BGenome medicine.2017 Nov 24;29178968
Genome-wide association study of telomere length among South Asians identifies a second RTEL1 association signal.Delgado, Dayana A; Zhang, Chenan; Chen, Lin S; Gao, Jianjun; Roy, Shantanu; Shinkle, Justin; Sabarinathan, Mekala; Argos, Maria; Tong, Lin; Ahmed, Alauddin; Islam, Tariqul; Rakibuz-Zaman, Muhammad; Sarwar, Golam; Shahriar, Hasan; Rahman, Mahfuzar; Yunus, Mohammad; Jasmine, Farzana; Kibriya, Muhammad G; Ahsan, Habibul; Pierce, Brandon LJournal of medical genetics.2018 Jan;29151059
Genome-wide association study identifies a novel locus for cannabis dependence.Agrawal, A; Chou, Y-L; Carey, C E; Baranger, D A A; Zhang, B; Sherva, R; Wetherill, L; Kapoor, M; Wang, J-C; Bertelsen, S; Anokhin, A P; Hesselbrock, V; Kramer, J; Lynskey, M T; Meyers, J L; Nurnberger, J I; Rice, J P; Tischfield, J; Bierut, L J; Degenhardt, L; Farrer, L A; Gelernter, J; Hariri, A R; Heath, A C; Kranzler, H R; Madden, P A F; Martin, N G; Montgomery, G W; Porjesz, B; Wang, T; Whitfield, J B; Edenberg, H J; Foroud, T; Goate, A M; Bogdan, R; Nelson, E CMolecular psychiatry.2017 Nov 07;29112194
High-throughput annotation of full-length long noncoding RNAs with capture long-read sequencing.Lagarde, Julien; Uszczynska-Ratajczak, Barbara; Carbonell, Silvia; Pérez-Lluch, Sílvia; Abad, Amaya; Davis, Carrie; Gingeras, Thomas R; Frankish, Adam; Harrow, Jennifer; Guigo, Roderic; Johnson, RoryNature genetics.2017 Dec;29106417
Genetic variation and gene expression across multiple tissues and developmental stages in a nonhuman primate.Jasinska, Anna J; Zelaya, Ivette; Service, Susan K; Peterson, Christine B; Cantor, Rita M; Choi, Oi-Wa; DeYoung, Joseph; Eskin, Eleazar; Fairbanks, Lynn A; Fears, Scott; Furterer, Allison E; Huang, Yu S; Ramensky, Vasily; Schmitt, Christopher A; Svardal, Hannes; Jorgensen, Matthew J; Kaplan, Jay R; Villar, Diego; Aken, Bronwen L; Flicek, Paul; Nag, Rishi; Wong, Emily S; Blangero, John; Dyer, Thomas D; Bogomolov, Marina; Benjamini, Yoav; Weinstock, George M; Dewar, Ken; Sabatti, Chiara; Wilson, Richard K; Jentsch, J David; Warren, Wesley; Coppola, Giovanni; Woods, Roger P; Freimer, Nelson BNature genetics.2017 Dec;29083405
Estimation of cis-eQTL effect sizes using a log of linear model.Palowitch, John; Shabalin, Andrey; Zhou, Yi-Hui; Nobel, Andrew B; Wright, Fred ABiometrics.2017 Oct 26;29073327
Evidence of reduced recombination rate in human regulatory domains.Liu, Yaping; Sarkar, Abhishek; Kheradpour, Pouya; Ernst, Jason; Kellis, ManolisGenome biology.2017 Oct 20;29058599
Bayesian Partition Models for Identifying Expression Quantitative Trait Loci.Jiang, Bo; Liu, Jun SJournal of the American Statistical Association.2015;29056798
A Dementia-Associated Risk Variant near TMEM106B Alters Chromatin Architecture and Gene Expression.Gallagher, Michael D; Posavi, Marijan; Huang, Peng; Unger, Travis L; Berlyand, Yosef; Gruenewald, Analise L; Chesi, Alessandra; Manduchi, Elisabetta; Wells, Andrew D; Grant, Struan F A; Blobel, Gerd A; Brown, Christopher D; Chen-Plotkin, Alice SAmerican journal of human genetics.2017 Nov 02;29056226
An empirical Bayes approach for multiple tissue eQTL analysis.Li, Gen; Shabalin, Andrey A; Rusyn, Ivan; Wright, Fred A; Nobel, Andrew BBiostatistics (Oxford, England).2017 Sep 25;29029013
Landscape of X chromosome inactivation across human tissues.Tukiainen, Taru; Villani, Alexandra-Chloé; Yen, Angela; Rivas, Manuel A; Marshall, Jamie L; Satija, Rahul; Aguirre, Matt; Gauthier, Laura; Fleharty, Mark; Kirby, Andrew; Cummings, Beryl B; Castel, Stephane E; Karczewski, Konrad J; Aguet, François; Byrnes, Andrea; 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, Tuuli; Regev, Aviv; Ardlie, Kristin G; Hacohen, Nir; MacArthur, Daniel GNature.2017 Oct 11;29022598
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, Alexis; Brown, Christopher D; Engelhardt, Barbara E; Montgomery, Stephen BNature.2017 Oct 11;29022597
Dynamic landscape and regulation of RNA editing in mammals.Tan, Meng How; Li, Qin; Shanmugam, Raghuvaran; Piskol, Robert; Kohler, Jennefer; Young, Amy N; Liu, Kaiwen Ivy; Zhang, Rui; Ramaswami, Gokul; Ariyoshi, Kentaro; Gupte, Ankita; Keegan, Liam P; George, Cyril X; Ramu, Avinash; Huang, Ni; Pollina, Elizabeth A; Leeman, Dena S; Rustighi, Alessandra; Goh, Y P Sharon; 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, Ajay; Del Sal, Giannino; Peltz, Gary; Brunet, Anne; Conrad, Donald F; Samuel, Charles E; O'Connell, Mary A; Walkley, Carl R; Nishikura, Kazuko; Li, Jin BillyNature.2017 Oct 11;29022589
Identifying cis-mediators for trans-eQTLs across many human tissues using genomic mediation analysis.Yang, Fan; Wang, Jiebiao; GTEx Consortium; Pierce, Brandon L; Chen, Lin SGenome research.2017 Nov;29021290
Quantifying the regulatory effect size of cis-acting genetic variation using allelic fold change.Mohammadi, Pejman; Castel, Stephane E; Brown, Andrew A; Lappalainen, TuuliGenome research.2017 Nov;29021289
Co-expression networks reveal the tissue-specific regulation of transcription and splicing.Saha, Ashis; Kim, Yungil; Gewirtz, Ariel D H; Jo, Brian; Gao, Chuan; McDowell, Ian C; GTEx Consortium; Engelhardt, Barbara E; Battle, AlexisGenome research.2017 Nov;29021288
Enhancing GTEx by bridging the gaps between genotype, gene expression, and disease.eGTEx ProjectNature genetics.2017 Dec;29019975
A genome-wide association study of LCH identifies a variant inSMAD6associated with susceptibility.Peckham-Gregory, Erin C; Chakraborty, Rikhia; Scheurer, Michael E; Belmont, John W; Abhyankar, Harshal; Sengal, Amel G; Scull, Brooks P; Eckstein, Olive; Zinn, Daniel J; Mayer, Louisa; Shih, Albert; Merad, Miriam; Parsons, D Williams; McClain, Kenneth L; Lupo, Philip J; Allen, Carl EBlood.2017 11 16;28935696
A Loss-of-Function Splice Acceptor Variant in IGF2 Is Protective for Type 2 Diabetes.Mercader, Josep M; Liao, Rachel G; Bell, Avery D; Dymek, Zachary; Estrada, Karol; Tukiainen, Taru; Huerta-Chagoya, Alicia; Moreno-Macías, Hortensia; Jablonski, Kathleen A; Hanson, Robert L; Walford, Geoffrey A; Moran, Ignasi; Chen, Ling; Agarwala, Vineeta; Ordoñez-Sánchez, María Luisa; Rodríguez-Guillen, Rosario; Rodríguez-Torres, Maribel; Segura-Kato, Yayoi; García-Ortiz, Humberto; Centeno-Cruz, Federico; Barajas-Olmos, Francisco; Caulkins, Lizz; Puppala, Sobha; Fontanillas, Pierre; Williams, Amy L; Bonàs-Guarch, Sílvia; Hartl, Chris; Ripke, Stephan; Diabetes Prevention Program Research Group; Tooley, Katherine; Lane, Jacqueline; Zerrweck, Carlos; Martínez-Hernández, Angélica; Córdova, Emilio J; Mendoza-Caamal, Elvia; Contreras-Cubas, Cecilia; González-Villalpando, María E; Cruz-Bautista, Ivette; Muñoz-Hernández, Liliana; Gómez-Velasco, Donaji; Alvirde, Ulises; Henderson, Brian E; Wilkens, Lynne R; Le Marchand, Loic; Arellano-Campos, Olimpia; Riba, Laura; Harden, Maegan; Broad Genomics Platform; Gabriel, Stacey; T2D-GENES Consortium; Abboud, Hanna E; Cortes, Maria L; Revilla-Monsalve, Cristina; Islas-Andrade, Sergio; Soberon, Xavier; Curran, Joanne E; Jenkinson, Christopher P; DeFronzo, Ralph A; Lehman, Donna M; Hanis, Craig L; Bell, Graeme I; Boehnke, Michael; Blangero, John; Duggirala, Ravindranath; Saxena, Richa; MacArthur, Daniel; Ferrer, Jorge; McCarroll, Steven A; Torrents, David; Knowler, William C; Baier, Leslie J; Burtt, Noel; González-Villalpando, Clicerio; Haiman, Christopher A; Aguilar-Salinas, Carlos A; Tusié-Luna, Teresa; Flannick, Jason; Jacobs, Suzanne B R; Orozco, Lorena; Altshuler, David; Florez, Jose C; SIGMA T2D Genetics ConsortiumDiabetes.2017 11;28838971
A Standardized Approach for Multispecies Purification of Mammalian Male Germ Cells by Mechanical Tissue Dissociation and Flow Cytometry.Lima, Ana C; Jung, Min; Rusch, Jannette; Usmani, Abul; Lopes, Alexandra M; Conrad, Donald FJournal of visualized experiments : JoVE.2017 07 12;28745623
10 Years of GWAS Discovery: Biology, Function, and Translation.Visscher, Peter M; Wray, Naomi R; Zhang, Qian; Sklar, Pamela; McCarthy, Mark I; Brown, Matthew A; Yang, JianAmerican journal of human genetics.2017 Jul 06;28686856
How to Map the Genetic Basis for Conditions that are Comorbid with Male Infertility.Nagirnaja, Liina; Vigh-Conrad, Katinka; Conrad, Donald FSeminars in reproductive medicine.2017 05;28658705
Female Genomics: Infertility and Overall Health.Joshi, Nikhil; Chan, Jessica LSeminars in reproductive medicine.2017 05;28658704
Identifying global expression patterns and key regulators in epithelial to mesenchymal transition through multi-study integration.Parsana, Princy; Amend, Sarah R; Hernandez, James; Pienta, Kenneth J; Battle, AlexisBMC cancer.2017 Jun 26;28651527
Characterising cis-regulatory variation in the transcriptome of histologically normal and tumour-derived pancreatic tissues.Zhang, Mingfeng; Lykke-Andersen, Soren; Zhu, Bin; Xiao, Wenming; Hoskins, Jason W; Zhang, Xijun; Rost, Lauren M; Collins, Irene; Bunt, Martijn van de; Jia, Jinping; Parikh, Hemang; Zhang, Tongwu; Song, Lei; Jermusyk, Ashley; Chung, Charles C; Zhu, Bin; Zhou, Weiyin; Matters, Gail L; Kurtz, Robert C; Yeager, Meredith; Jensen, Torben Heick; Brown, Kevin M; Ongen, Halit; Bamlet, William R; Murray, Bradley A; McCarthy, Mark I; Chanock, Stephen J; Chatterjee, Nilanjan; Wolpin, Brian M; Smith, Jill P; Olson, Sara H; Petersen, Gloria M; Shi, Jianxin; Amundadottir, LaufeyGut.2017 Jun 20;28634199
The association between telomere length and mortality in Bangladesh.Dean, Samantha G; Zhang, Chenan; Gao, Jianjun; Roy, Shantanu; Shinkle, Justin; Sabarinathan, Mekala; Argos, Maria; Tong, Lin; Ahmed, Alauddin; Islam, Md Tariqul; Islam, Tariqul; Rakibuz-Zaman, Muhammad; Sarwar, Golam; Shahriar, Hasan; Rahman, Mahfuzar; Yunus, Md; Graziano, Joseph H; Chen, Lin S; Jasmine, Farzana; Kibriya, Muhammad G; Ahsan, Habibul; Pierce, Brandon LAging.2017 Jun 15;28630379
Clinical and Genome-Wide Analysis of Cisplatin-Induced Peripheral Neuropathy in Survivors of Adult-Onset Cancer.Dolan, M Eileen; El Charif, Omar; Wheeler, Heather E; Gamazon, Eric R; Ardeshir-Rouhani-Fard, Shirin; Monahan, Patrick; Feldman, Darren R; Hamilton, Robert J; Vaughn, David J; Beard, Clair J; Fung, Chunkit; Kim, Jeri; Fossa, Sophie D; Hertz, Daniel L; Mushiroda, Taisei; Kubo, Michiaki; Einhorn, Lawrence H; Cox, Nancy J; Travis, Lois B; Platinum Study GroupClinical cancer research : an official journal of the American Association for Cancer Research.2017 Oct 01;28611204
Protein-altering and regulatory genetic variants near GATA4 implicated in bicuspid aortic valve.Yang, Bo; Zhou, Wei; Jiao, Jiao; Nielsen, Jonas B; Mathis, Michael R; Heydarpour, Mahyar; Lettre, Guillaume; Folkersen, Lasse; Prakash, Siddharth; Schurmann, Claudia; Fritsche, Lars; Farnum, Gregory A; Lin, Maoxuan; Othman, Mohammad; Hornsby, Whitney; Driscoll, Anisa; Levasseur, Alexandra; Thomas, Marc; Farhat, Linda; Dubé, Marie-Pierre; Isselbacher, Eric M; Franco-Cereceda, Anders; Guo, Dong-Chuan; Bottinger, Erwin P; Deeb, G Michael; Booher, Anna; Kheterpal, Sachin; Chen, Y Eugene; Kang, Hyun Min; Kitzman, Jacob; Cordell, Heather J; Keavney, Bernard D; Goodship, Judith A; Ganesh, Santhi K; Abecasis, Gonçalo; Eagle, Kim A; Boyle, Alan P; Loos, Ruth J F; Eriksson, Per; Tardif, Jean-Claude; Brummett, Chad M; Milewicz, Dianna M; Body, Simon C; Willer, Cristen JNature communications.2017 May 25;28541271
Allele-specific expression reveals interactions between genetic variation and environment.Knowles, David A; Davis, Joe R; Edgington, Hilary; Raj, Anil; Favé, Marie-Julie; Zhu, Xiaowei; Potash, James B; Weissman, Myrna M; Shi, Jianxin; Levinson, Douglas F; Awadalla, Philip; Mostafavi, Sara; Montgomery, Stephen B; Battle, AlexisNature methods.2017 Jul;28530654
Widespread Allelic Heterogeneity in Complex Traits.Hormozdiari, Farhad; Zhu, Anthony; Kichaev, Gleb; Ju, Chelsea J-T; Segrè, Ayellet V; Joo, Jong Wha J; Won, Hyejung; Sankararaman, Sriram; Pasaniuc, Bogdan; Shifman, Sagiv; Eskin, EleazarAmerican journal of human genetics.2017 May 04;28475861
Reproducible RNA-seq analysis using recount2.Collado-Torres, Leonardo; Nellore, Abhinav; Kammers, Kai; Ellis, Shannon E; Taub, Margaret A; Hansen, Kasper D; Jaffe, Andrew E; Langmead, Ben; Leek, Jeffrey TNature biotechnology.2017 04 11;28398307
Population- and individual-specific regulatory variation in Sardinia.Pala, Mauro; Zappala, Zachary; Marongiu, Mara; Li, Xin; Davis, Joe R; Cusano, Roberto; Crobu, Francesca; Kukurba, Kimberly R; Gloudemans, Michael J; Reinier, Frederic; Berutti, Riccardo; Piras, Maria G; Mulas, Antonella; Zoledziewska, Magdalena; Marongiu,Nature genetics.2017 May;28394350
Large, Diverse Population Cohorts of hiPSCs and Derived Hepatocyte-like Cells Reveal Functional Genetic Variation at Blood Lipid-Associated Loci.Pashos, Evanthia E; Park, YoSon; Wang, Xiao; Raghavan, Avanthi; Yang, Wenli; Abbey, Deepti; Peters, Derek T; Arbelaez, Juan; Hernandez, Mayda; Kuperwasser, Nicolas; Li, Wenjun; Lian, Zhaorui; Liu, Ying; Lv, Wenjian; Lytle-Gabbin, Stacey L; Marchadier, Dawn H; Rogov, Peter; Shi, Jianting; Slovik, Katherine J; Stylianou, Ioannis M; Wang, Li; Yan, Ruilan; Zhang, Xiaolan; Kathiresan, Sekar; Duncan, Stephen A; Mikkelsen, Tarjei S; Morrisey, Edward E; Rader, Daniel J; Brown, Christopher D; Musunuru, KiranCell stem cell.2017 Apr 06;28388432
The impact of structural variation on human gene expression.Chiang, Colby; Scott, Alexandra J; Davis, Joe R; Tsang, Emily K; Li, Xin; Kim, Yungil; Hadzic, Tarik; Damani, Farhan N; Ganel, Liron; GTEx Consortium; Montgomery, Stephen B; Battle, Alexis; Conrad, Donald F; Hall, Ira MNature genetics.2017 May;28369037
A Low-Frequency Inactivating AKT2 Variant Enriched in the Finnish Population Is Associated With Fasting Insulin Levels and Type 2 Diabetes Risk.Manning, Alisa (see original citation for additional authors)Diabetes.2017 Jul;28341696
PML nuclear bodies contribute to the basal expression of the mTOR inhibitor DDIT4.Salsman, Jayme; Stathakis, Alex; Parker, Ellen; Chung, Dudley; Anthes, Livia E; Koskowich, Kara L; Lahsaee, Sara; Gaston, Daniel; Kukurba, Kimberly R; Smith, Kevin S; Chute, Ian C; Léger, Daniel; Frost, Laura D; Montgomery, Stephen B; Lewis, Stephen M; EsScientific reports.2017 Mar 23;28332630
Correcting for cell-type heterogeneity in DNA methylation: a comprehensive evaluation.Rahmani, Elior; Zaitlen, Noah; Baran, Yael; Eng, Celeste; Hu, Donglei; Galanter, Joshua; Oh, Sam; Burchard, Esteban G; Eskin, Eleazar; Zou, James; Halperin, EranNature methods.2017 Feb 28;28245214
Pathway-wide association study identifies five shared pathways associated with schizophrenia in three ancestral distinct populations.Liu, C; Bousman, C A; Pantelis, C; Skafidas, E; Zhang, D; Yue, W; Everall, I PTranslational psychiatry.2017 Feb 21;28221366
A genome-wide association study yields five novel thyroid cancer risk loci.Gudmundsson, Julius; Thorleifsson, Gudmar; Sigurdsson, Jon K; Stefansdottir, Lilja; Jonasson, Jon G; Gudjonsson, Sigurjon A; Gudbjartsson, Daniel F; Masson, Gisli; Johannsdottir, Hrefna; Halldorsson, Gisli H; Stacey, Simon N; Helgason, Hannes; Sulem, PatrNature communications.2017 Feb 14;28195142
The Relation Between Inflation in Type-I and Type-II Error Rate and Population Divergence in Genome-Wide Association Analysis of Multi-Ethnic Populations.Derks, E M; Zwinderman, A H; Gamazon, E RBehavior genetics.2017 May;28185111
Integrated analysis of genetic variation and gene expression reveals novel variant for increased warfarin dose requirement in African Americans.Hernandez, W; Gamazon, E R; Aquino-Michaels, K; Smithberger, E; O'Brien, T J; Harralson, A F; Tuck, M; Barbour, A; Cavallari, L H; Perera, M AJournal of thrombosis and haemostasis : JTH.2017 04;28135054
Decreased STARD10 Expression Is Associated with Defective Insulin Secretion in Humans and Mice.Carrat, Gaelle R; Hu, Ming; Nguyen-Tu, Marie-Sophie; Chabosseau, Pauline; Gaulton, Kyle J; van de Bunt, Martijn; Siddiq, Afshan; Falchi, Mario; Thurner, Matthias; Canouil, Mickaël; Pattou, Francois; Leclerc, Isabelle; Pullen, Timothy J; Cane, Matthew C; PAmerican journal of human genetics.2017 Feb 02;28132686
Simultaneous Modeling of Disease Status and Clinical Phenotypes To Increase Power in Genome-Wide Association Studies.Bilow, Michael; Crespo, Fernando; Pan, Zhicheng; Eskin, Eleazar; Eyheramendy, SusanaGenetics.2017 Mar;28132020
Blood pressure-associated polymorphism controls ARHGAP42 expression via serum response factor DNA binding.Bai, Xue; Mangum, Kevin D; Dee, Rachel A; Stouffer, George A; Lee, Craig R; Oni-Orisan, Akinyemi; Patterson, Cam; Schisler, Jonathan C; Viera, Anthony J; Taylor, Joan M; Mack, Christopher PThe Journal of clinical investigation.2017 Feb 01;28112683
Non-Coding Loss-of-Function Variation in Human Genomes.Zappala, Zachary; Montgomery, Stephen BHuman heredity.2016;28076858
Variants in WFS1 and other Mendelian deafness genes are associated with cisplatin-associated ototoxicity.Wheeler, Heather E; Gamazon, Eric R; Frisina, Robert; Perez-Cervantes, Carlos; El Charif, Omar; Mapes, Brandon; Fossa, Sophie D; Feldman, Darren; Hamilton, Robert; Vaughn, David J; Beard, Clair; Fung, Chunkit; Kollmannsberger, Christian; Kim, Jeri; MushirClinical cancer research : an official journal of the American Association for Cancer Research.2016 Dec 30;28039263
Targeted bisulfite sequencing of the dynamic DNA methylome.Ziller, Michael J; Stamenova, Elena K; Gu, Hongcang; Gnirke, Andreas; Meissner, AlexanderEpigenetics & chromatin.2016;27980681
A tiered, Bayesian approach to estimating of population variability for regulatory decision-making.Chiu, Weihsueh A; Wright, Fred A; Rusyn, IvanALTEX.2016 Dec 13;27960008
Alpha-2 macroglobulin in Alzheimer's disease: a marker of neuronal injury through the RCAN1 pathway.Varma, V R; Varma, S; An, Y; Hohman, T J; Seddighi, S; Casanova, R; Beri, A; Dammer, E B; Seyfried, N T; Pletnikova, O; Moghekar, A; Wilson, M R; Lah, J J; O'Brien, R J; Levey, A I; Troncoso, J C; Albert, M S; Thambisetty, MMolecular psychiatry.2017 Jan;27872486
Integrating GWAS and Co-expression Network Data Identifies Bone Mineral Density Genes SPTBN1 and MARK3 and an Osteoblast Functional Module.Calabrese, Gina M; Mesner, Larry D; Stains, Joseph P; Tommasini, Steven M; Horowitz, Mark C; Rosen, Clifford J; Farber, Charles RCell systems.2017 Jan 25;27866947
Colocalization of GWAS and eQTL Signals Detects Target Genes.Hormozdiari, Farhad; van de Bunt, Martijn; Segrè, Ayellet V; Li, Xiao; Joo, Jong Wha J; Bilow, Michael; Sul, Jae Hoon; Sankararaman, Sriram; Pasaniuc, Bogdan; Eskin, EleazarAmerican journal of human genetics.2016 Dec 01;27866706
Detecting differential growth of microbial populations with Gaussian process regression.Tonner, Peter D; Darnell, Cynthia L; Engelhardt, Barbara E; Schmid, Amy KGenome research.2017 Feb;27864351
Multiplex shRNA Screening of Germ Cell Development by in Vivo Transfection of Mouse Testis.Ho, Nicholas R Y; Usmani, Abul R; Yin, Yan; Ma, Liang; Conrad, Donald FG3 (Bethesda, Md.).2017 Jan 05;27856695
Sex-Specific and Time-Varying Associations Between Cigarette Smoking and Telomere Length Among Older Adults.Zhang, Chenan; Lauderdale, Diane S; Pierce, Brandon LAmerican journal of epidemiology.2016 Dec 15;27856448
Controlling the Rate of GWAS False Discoveries.Brzyski, Damian; Peterson, Christine B; Sobczyk, Piotr; Candès, Emmanuel J; Bogdan, Malgorzata; Sabatti, ChiaraGenetics.;27784720
Genome-wide significance testing of variation from single case exomes.Wilfert AB, Chao KR, Kaushal M, Jain S, Zollner S, Adams DR, Conrad DF.Nat Genet2016 Oct27776118
Efficient and Accurate Multiple-Phenotype Regression Method for High Dimensional Data Considering Population Structure.Joo, Jong Wha J; Kang, Eun Yong; Org, Elin; Furlotte, Nick; Parks, Brian; Hormozdiari, Farhad; Lusis, Aldons J; Eskin, EleazarGenetics.2016 Dec;27770036
Discovering SNPs Regulating Human Gene Expression Using Allele Specific Expression from RNA-Seq Data.Kang, Eun Yong; Martin, Lisa; Mangul, Serghei; Isvilanonda, Warin; Zou, Jennifer; Ben-David, Eyal; Han, Buhm; Lusis, Aldons J; Shifman, Sagiv; Eskin, EleazarGenetics.2016 Oct 07;27765809
Chromosome conformation elucidates regulatory relationships in developing human brain.Won, Hyejung; de la Torre-Ubieta, Luis; Stein, Jason L; Parikshak, Neelroop N; Huang, Jerry; Opland, Carli K; Gandal, Michael J; Sutton, Gavin J; Hormozdiari, Farhad; Lu, Daning; Lee, Changhoon; Eskin, Eleazar; Voineagu, Irina; Ernst, Jason; Geschwind, DaNature.2016 Oct 19;27760116
Genetic resilience to amyloid related cognitive decline.Hohman, Timothy J; Dumitrescu, Logan; Cox, Nancy J; Jefferson, Angela L; Alzheimer?s Neuroimaging InitiativeBrain imaging and behavior.2017 Apr;27743375
Detection of human adaptation during the past 2000 years.Field, Yair; Boyle, Evan A; Telis, Natalie; Gao, Ziyue; Gaulton, Kyle J; Golan, David; Yengo, Loic; Rocheleau, Ghislain; Froguel, Philippe; McCarthy, Mark I; Pritchard, Jonathan KScience (New York, N.Y.).;27738015
Detecting Sources of Transcriptional Heterogeneity in Large-Scale RNA-Seq Data Sets.Searle, Brian C; Gittelman, Rachel M; Manor, Ohad; Akey, Joshua MGenetics.2016 Dec;27729424
Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions.Ernst, Jason; Melnikov, Alexandre; Zhang, Xiaolan; Wang, Li; Rogov, Peter; Mikkelsen, Tarjei S; Kellis, ManolisNature biotechnology.2016 Nov;27701403
IL1RL1 asthma risk variants regulate airway type 2 inflammation.Gordon, Erin D; Palandra, Joe; Wesolowska-Andersen, Agata; Ringel, Lando; Rios, Cydney L; Lachowicz-Scroggins, Marrah E; Sharp, Louis Z; Everman, Jamie L; MacLeod, Hannah J; Lee, Jae W; Mason, Robert J; Matthay, Michael A; Sheldon, Richard T; Peters, MichJCI insight.2016 Sep 08;27699235
Non-linear interactions between candidate genes of myocardial infarction revealed in mRNA expression profiles.Hartmann, Katherine; Seweryn, Micha?; Handleman, Samuel K; Rempa?a, Grzegorz A; Sadee, WolfgangBMC genomics.2016 Sep 17;27640124
Trans-ancestry meta-analyses identify rare and common variants associated with blood pressure and hypertension.Surendran, Praveen (see original citation for additional authors)Nature genetics.2016 10;27618447
Rare variant phasing and haplotypic expression from RNA sequencing with phASER.Castel, Stephane E; Mohammadi, Pejman; Chung, Wendy K; Shen, Yufeng; Lappalainen, TuuliNature communications.2016 Sep 08;27605262
REDIportal: a comprehensive database of A-to-I RNA editing events in humans.Picardi, Ernesto; D'Erchia, Anna Maria; Lo Giudice, Claudio; Pesole, GrazianoNucleic acids research.2017 Jan 04;27587585
Multispecies Purification of Testicular Germ Cells.Lima, Ana C; Jung, Min; Rusch, Jannette; Usmani, Abul; Lopes, Alexandra; Conrad, Donald FBiology of reproduction.2016 Aug 24;27557646
A reference panel of 64,976 haplotypes for genotype imputation.McCarthy, Shane; Das, Sayantan; Kretzschmar, Warren; Delaneau, Olivier; Wood, Andrew R; Teumer, Alexander; Kang, Hyun Min; Fuchsberger, Christian; Danecek, Petr; Sharp, Kevin; Luo, Yang; Sidore, Carlo; Kwong, Alan; Timpson, Nicholas; Koskinen, Seppo; Vrieze, Scott; Scott, Laura J; Zhang, He; Mahajan, Anubha; Veldink, Jan; Peters, Ulrike; Pato, Carlos; van Duijn, Cornelia M; Gillies, Christopher E; Gandin, Ilaria; Mezzavilla, Massimo; Gilly, Arthur; Cocca, Massimiliano; Traglia, Michela; Angius, Andrea; Barrett, Jeffrey C; Boomsma, Dorrett; Branham, Kari; Breen, Gerome; Brummett, Chad M; Busonero, Fabio; Campbell, Harry; Chan, Andrew; Chen, Sai; Chew, Emily; Collins, Francis S; Corbin, Laura J; Smith, George Davey; Dedoussis, George; Dorr, Marcus; Farmaki, Aliki-Eleni; Ferrucci, Luigi; Forer, Lukas; Fraser, Ross M; Gabriel, Stacey; Levy, Shawn; Groop, Leif; Harrison, Tabitha; Hattersley, Andrew; Holmen, Oddgeir L; Hveem, Kristian; Kretzler, Matthias; Lee, James C; McGue, Matt; Meitinger, Thomas; Melzer, David; Min, Josine L; Mohlke, Karen L; Vincent, John B; Nauck, Matthias; Nickerson, Deborah; Palotie, Aarno; Pato, Michele; Pirastu, Nicola; McInnis, Melvin; Richards, J Brent; Sala, Cinzia; Salomaa, Veikko; Schlessinger, David; Schoenherr, Sebastian; Slagboom, P Eline; Small, Kerrin; Spector, Timothy; Stambolian, Dwight; Tuke, Marcus; Tuomilehto, Jaakko; Van den Berg, Leonard H; Van Rheenen, Wouter; Volker, Uwe; Wijmenga, Cisca; Toniolo, Daniela; Zeggini, Eleftheria; Gasparini, Paolo; Sampson, Matthew G; Wilson, James F; Frayling, Timothy; de Bakker, Paul I W; Swertz, Morris A; McCarroll, Steven; Kooperberg, Charles; Dekker, Annelot; Altshuler, David; Willer, Cristen; Iacono, William; Ripatti, Samuli; Soranzo, Nicole; Walter, Klaudia; Swaroop, Anand; Cucca, Francesco; Anderson, Carl A; Myers, Richard M; Boehnke, Michael; McCarthy, Mark I; Durbin, Richard; Haplotype Reference ConsortiumNature genetics.2016 10;27548312
Aging Shapes the Population-Mean and -Dispersion of Gene Expression in Human Brains.Brinkmeyer-Langford, Candice L; Guan, Jinting; Ji, Guoli; Cai, James JFrontiers in aging neuroscience.2016;27536236
Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq).Lagarde, Julien; Uszczynska-Ratajczak, Barbara; Santoyo-Lopez, Javier; Gonzalez, Jose Manuel; Tapanari, Electra; Mudge, Jonathan M; Steward, Charles A; Wilming, Laurens; Tanzer, Andrea; Howald, Cédric; Chrast, Jacqueline; Vela-Boza, Alicia; Rueda, Antonio; Lopez-Domingo, Francisco J; Dopazo, Joaquin; Reymond, Alexandre; Guigó, Roderic; Harrow, JenniferNature communications.2016 Aug 17;27531712
Loss of Function of GALNT2 Lowers High-Density Lipoproteins in Humans, Nonhuman Primates, and Rodents.Khetarpal, Sumeet A; Schjoldager, Katrine T; Christoffersen, Christina; Raghavan, Avanthi; Edmondson, Andrew C; Reutter, Heiko M; Ahmed, Bouhouche; Ouazzani, Reda; Peloso, Gina M; Vitali, Cecilia; Zhao, Wei; Somasundara, Amritha Varshini Hanasoge; Millar, John S; Park, YoSon; Fernando, Gayani; Livanov, Valentin; Choi, Seungbum; Noé, Eric; Patel, Pritesh; Ho, Siew Peng; Myocardial Infarction Exome Sequencing Study; Kirchgessner, Todd G; Wandall, Hans H; Hansen, Lars; Bennett, Eric P; Vakhrushev, Sergey Y; Saleheen, Danish; Kathiresan, Sekar; Brown, Christopher D; Abou Jamra, Rami; LeGuern, Eric; Clausen, Henrik; Rader, Daniel JCell metabolism.2016 Aug 09;27508872
Context Specific and Differential Gene Co-expression Networks via Bayesian Biclustering.Gao, Chuan; McDowell, Ian C; Zhao, Shiwen; Brown, Christopher D; Engelhardt, Barbara EPLoS computational biology.2016 Jul;27467526
The genetic architecture of type 2 diabetes.Nature.2016 Aug 4;27398621
Genome-wide association study of 40,000 individuals identifies two novel loci associated with bipolar disorder.Hou, Liping; Bergen, Sarah E; Akula, Nirmala; Song, Jie; Hultman, Christina M; Landén, Mikael; Adli, Mazda; Alda, Martin; Ardau, Raffaella; Arias, Bárbara; Aubry, Jean-Michel; Backlund, Lena; Badner, Judith A; Barrett, Thomas B; Bauer, Michael; Baune, BerHuman molecular genetics.2016 Aug 01;27329760
Two olfactory receptors-OR2A4/7 and OR51B5-differentially affect epidermal proliferation and differentiation.Tsai, Teresa; Veitinger, Sophie; Peek, Irina; Busse, Daniela; Eckardt, Josephine; Vladimirova, Dilyana; Jovancevic, Nikolina; Wojcik, Sebastian; Gisselmann, Günter; Altmüller, Janine; Ständer, Sonja; Luger, Thomas; Paus, Ralf; Cheret, Jeremy; Hatt, HannsExperimental dermatology.2017 01;27315375
Using genomic annotations increases statistical power to detect eGenes.Duong, Dat; Zou, Jennifer; Hormozdiari, Farhad; Sul, Jae Hoon; Ernst, Jason; Han, Buhm; Eskin, EleazarBioinformatics (Oxford, England).2016 Jun 15;27307612
Imputing Phenotypes for Genome-wide Association Studies.Hormozdiari, Farhad; Kang, Eun Yong; Bilow, Michael; Ben-David, Eyal; Vulpe, Chris; McLachlan, Stela; Lusis, Aldons J; Han, Buhm; Eskin, EleazarAmerican journal of human genetics.2016 Jul 7;27292110
Fast and Accurate Construction of Confidence Intervals for Heritability.Schweiger, Regev; Kaufman, Shachar; Laaksonen, Reijo; Kleber, Marcus E; März, Winfried; Eskin, Eleazar; Rosset, Saharon; Halperin, EranAmerican journal of human genetics.2016 Jun 2;27259052
Efficient Integrative Multi-SNP Association Analysis via Deterministic Approximation of Posteriors.Wen, Xiaoquan; Lee, Yeji; Luca, Francesca; Pique-Regi, RogerAmerican journal of human genetics.2016 Jun 2;27236919
Defining the Phenotype and Assessing Severity in Phosphoglucomutase-1 Deficiency.Wong, Sunnie Yan-Wai; Beamer, Lesa J; Gadomski, Therese; Honzik, Tomas; Mohamed, Miski; Wortmann, Saskia B; Brocke Holmefjord, Katja S; Mork, Marit; Bowling, Francis; Sykut-Cegielska, Jolanta; Koch, Dieter; Ackermann, Amanda; Stanley, Charles A; Rymen, DaThe Journal of pediatrics.2016 Aug;27206562
Coregulation of tandem duplicate genes slows evolution of subfunctionalization in mammals.Lan, Xun; Pritchard, Jonathan KScience (New York, N.Y.).2016 May 20;27199432
A flexible method for estimating the fraction of fitness influencing mutations from large sequencing data sets.Moon, Sunjin; Akey, Joshua MGenome research.2016 Jun;27197222
Impact of the X Chromosome and sex on regulatory variation.Kukurba, Kimberly R; Parsana, Princy; Balliu, Brunilda; Smith, Kevin S; Zappala, Zachary; Knowles, David A; Favé, Marie-Julie; Davis, Joe R; Li, Xin; Zhu, Xiaowei; Potash, James B; Weissman, Myrna M; Shi, Jianxin; Kundaje, Anshul; Levinson, Douglas F; Awadalla, Philip; Mostafavi, Sara; Battle, Alexis; Montgomery, Stephen BGenome research.2016 Jun;27197214
Telomere length measurement by a novel Luminex-based assay: a blinded comparison to Southern blot.Pierce, Brandon L; Jasmine, Farzana; Roy, Shantanu; Zhang, Chenan; Aviv, Abraham; Hunt, Steven C; Ahsan, Habibul; Kibriya, Muhammad GInternational journal of molecular epidemiology and genetics.2016;27186324
Characterization of Expression Quantitative Trait Loci in Pedigrees from Colombia and Costa Rica Ascertained for Bipolar Disorder.Peterson, Christine B; Service, Susan K; Jasinska, Anna J; Gao, Fuying; Zelaya, Ivette; Teshiba, Terri M; Bearden, Carrie E; Cantor, Rita M; Reus, Victor I; Macaya, Gabriel; López-Jaramillo, Carlos; Bogomolov, Marina; Benjamini, Yoav; Eskin, Eleazar; Coppola, Giovanni; Freimer, Nelson B; Sabatti, ChiaraPLoS genetics.2016 May;27176483
A human-specific AS3MT isoform and BORCS7 are molecular risk factors in the 10q24.32 schizophrenia-associated locus.Li, Ming; Jaffe, Andrew E; Straub, Richard E; Tao, Ran; Shin, Joo Heon; Wang, Yanhong; Chen, Qiang; Li, Chao; Jia, Yankai; Ohi, Kazutaka; Maher, Brady J; Brandon, Nicholas J; Cross, Alan; Chenoweth, Joshua G; Hoeppner, Daniel J; Wei, Huijun; Hyde, Thomas M; McKay, Ronald; Kleinman, Joel E; Weinberger, Daniel RNature medicine.2016 06;27158905
TreeQTL: hierarchical error control for eQTL findings.Peterson, C B; Bogomolov, M; Benjamini, Y; Sabatti, CBioinformatics (Oxford, England).2016 Apr 19;27153635
Functional Characterization of DNA Methylation in the Oligodendrocyte Lineage.Moyon, Sarah; Huynh, Jimmy L; Dutta, Dipankar; Zhang, Fan; Ma, Dan; Yoo, Seungyeul; Lawrence, Rebecca; Wegner, Michael; John, Gareth R; Emery, Ben; Lubetzki, Catherine; Franklin, Robin J M; Fan, Guoping; Zhu, Jun; Dupree, Jeffrey L; Casaccia, PatriziaCell reports.2016 Apr 13;27149841
RNA splicing is a primary link between genetic variation and disease.Li, Yang I; van de Geijn, Bryce; Raj, Anil; Knowles, David A; Petti, Allegra A; Golan, David; Gilad, Yoav; Pritchard, Jonathan KScience (New York, N.Y.).2016 Apr 29;27126046
Imputing Gene Expression in Uncollected Tissues Within and Beyond GTEx.Wang, Jiebiao; Gamazon, Eric R; Pierce, Brandon L; Stranger, Barbara E; Im, Hae Kyung; Gibbons, Robert D; Cox, Nancy J; Nicolae, Dan L; Chen, Lin SAmerican journal of human genetics.2016 Apr 7;27040689
Multiple testing correction in linear mixed models.Joo, Jong Wha J; Hormozdiari, Farhad; Han, Buhm; Eskin, EleazarGenome biology.2016;27039378
Sparse PCA corrects for cell type heterogeneity in epigenome-wide association studies.Rahmani, Elior; Zaitlen, Noah; Baran, Yael; Eng, Celeste; Hu, Donglei; Galanter, Joshua; Oh, Sam; Burchard, Esteban G; Eskin, Eleazar; Zou, James; Halperin, EranNature methods.2016 May;27018579
Molecular insights into the OGG1 gene, a cancer risk modifier in BRCA1 and BRCA2 mutations carriers.Benitez-Buelga, Carlos; Vaclová, Tereza; Ferreira, Sofia; Urioste, Miguel; Inglada-Perez, Lucia; Soberón, Nora; Blasco, Maria A; Osorio, Ana; Benitez, JavierOncotarget.2016 May 03;27015555
Accounting for Population Structure in Gene-by-Environment Interactions in Genome-Wide Association Studies Using Mixed Models.Sul, Jae Hoon; Bilow, Michael; Yang, Wen-Yun; Kostem, Emrah; Furlotte, Nick; He, Dan; Eskin, EleazarPLoS genetics.2016 Mar;26943367
Novel genetic predictors of venous thromboembolism risk in African Americans.Hernandez, Wenndy; Gamazon, Eric R; Smithberger, Erin; O'Brien, Travis J; Harralson, Arthur F; Tuck, Matthew; Barbour, April; Kittles, Rick A; Cavallari, Larisa H; Perera, Minoli ABlood.2016 Apr 14;26888256
A variant at 9p21.3 functionally implicates CDKN2B in paediatric B-cell precursor acute lymphoblastic leukaemia aetiology.Hungate, Eric A; Vora, Sapana R; Gamazon, Eric R; Moriyama, Takaya; Best, Timothy; Hulur, Imge; Lee, Younghee; Evans, Tiffany-Jane; Ellinghaus, Eva; Stanulla, Martin; Rudant, Jéremie; Orsi, Laurent; Clavel, Jacqueline; Milne, Elizabeth; Scott, Rodney J; Pui, Ching-Hon; Cox, Nancy J; Loh, Mignon L; Yang, Jun J; Skol, Andrew D; Onel, KenanNature communications.2016;26868379
Inter-tissue coexpression network analysis reveals DPP4 as an important gene in heart to blood communication.Long, Quan; Argmann, Carmen; Houten, Sander M; Huang, Tao; Peng, Siwu; Zhao, Yong; Tu, Zhidong; GTEx Consortium; Zhu, JunGenome medicine.2016;26856537
An Efficient Multiple-Testing Adjustment for eQTL Studies that Accounts for Linkage Disequilibrium between Variants.Davis, Joe R; Fresard, Laure; Knowles, David A; Pala, Mauro; Bustamante, Carlos D; Battle, Alexis; Montgomery, Stephen BAmerican journal of human genetics.2016 Jan 7;26749306
Insertion of an SVA-E retrotransposon into the CASP8 gene is associated with protection against prostate cancer.Stacey, Simon N; Kehr, Birte; Gudmundsson, Julius; Zink, Florian; Jonasdottir, Aslaug; Gudjonsson, Sigurjon A; Sigurdsson, Asgeir; Halldorsson, Bjarni V; Agnarsson, Bjarni A; Benediktsdottir, Kristrun R; Aben, Katja K H; Vermeulen, Sita H; Cremers, Ruben G; Panadero, Angeles; Helfand, Brian T; Cooper, Phillip R; Donovan, Jenny L; Hamdy, Freddie C; Jinga, Viorel; Okamoto, Ichiro; Jonasson, Jon G; Tryggvadottir, Laufey; Johannsdottir, Hrefna; Kristinsdottir, Anna M; Masson, Gisli; Magnusson, Olafur T; Iordache, Paul D; Helgason, Agnar; Helgason, Hannes; Sulem, Patrick; Gudbjartsson, Daniel F; Kong, Augustine; Jonsson, Eirikur; Barkardottir, Rosa B; Einarsson, Gudmundur V; Rafnar, Thorunn; Thorsteinsdottir, Unnur; Mates, Ioan N; Neal, David E; Catalona, William J; Mayordomo, José I; Kiemeney, Lambertus A; Thorleifsson, Gudmar; Stefansson, KariHuman molecular genetics.2016 Mar 1;26740556
Common variants on 17q25 and gene-gene interactions conferring risk of schizophrenia in Han Chinese population and regulating gene expressions in human brain.Guan, L; Wang, Q; Wang, L; Wu, B; Chen, Y; Liu, F; Ye, F; Zhang, T; Li, K; Yan, B; Lu, C; Su, L; Jin, G; Wang, H; Tian, H; Wang, L; Chen, Z; Wang, Y; Chen, J; Yuan, Y; Cong, W; Zheng, J; Wang, J; Xu, X; Liu, H; Xiao, W; Han, C; Zhang, Y; Jia, F; Qiao, X; Genetic REsearch on schizophrenia neTwork-China and Netherland (GREAT-CN); Zhang, D; Zhang, M; Ma, HMolecular psychiatry.2016 09;26728569
Many Phenotypes Without Many False Discoveries: Error Controlling Strategies for Multitrait Association Studies.Peterson, Christine B; Bogomolov, Marina; Benjamini, Yoav; Sabatti, ChiaraGenetic epidemiology.2016 Jan;26626037
Proteasome system dysregulation and treatment resistance mechanisms in major depressive disorder.Minelli, A; Magri, C; Barbon, A; Bonvicini, C; Segala, M; Congiu, C; Bignotti, S; Milanesi, E; Trabucchi, L; Cattane, N; Bortolomasi, M; Gennarelli, MTranslational psychiatry.2015;e68726624926
Transcript Expression Data from Human Islets Links Regulatory Signals from Genome-Wide Association Studies for Type 2 Diabetes and Glycemic Traits to Their Downstream Effectors.van de Bunt, Martijn; Manning Fox, Jocelyn E; Dai, Xiaoqing; Barrett, Amy; Grey, Caleb; Li, Lei; Bennett, Amanda J; Johnson, Paul R; Rajotte, Raymond V; Gaulton, Kyle J; Dermitzakis, Emmanouil T; MacDonald, Patrick E; McCarthy, Mark I; Gloyn, Anna LPLoS genetics.2015 Dec;26624892
IsoDOT Detects Differential RNA-isoform Expression/Usage with respect to a Categorical or Continuous Covariate with High Sensitivity and Specificity.Sun, Wei; Liu, Yufeng; Crowley, James J; Chen, Ting-Hued; Zhou, Hua; Chu, Haitao; Huang, Shunping; Kuan, Pei-Fen; Li, Yuan; Miller, Darla R; Shaw, Ginger D; Wu, Yichao; Zhabotynsky, Vasyl; McMillan, Leonard; Zou, Fei; Sullivan, Patrick F; de Villena, Fernando Pardo-ManuelJournal of the American Statistical Association.2015;975-98626617424
ORegAnno 3.0: a community-driven resource for curated regulatory annotation.Lesurf, Robert; Cotto, Kelsy C; Wang, Grace; Griffith, Malachi; Kasaian, Katayoon; Jones, Steven J M; Montgomery, Stephen B; Griffith, Obi L; Open Regulatory Annotation ConsortiumNucleic acids research.2016 Jan 4;26578589
Joint Bayesian variable and graph selection for regression models with network-structured predictors.Peterson, Christine B; Stingo, Francesco C; Vannucci, MarinaStatistics in medicine.2016 Mar 30;1017-3126514925
A unified set-based test with adaptive filtering for gene-environment interaction analyses.Liu, Qianying; Chen, Lin S; Nicolae, Dan L; Pierce, Brandon LBiometrics.2015 Oct 23;26496228
DECKO: Single-oligo, dual-CRISPR deletion of genomic elements including long non-coding RNAs.Aparicio-Prat, Estel; Arnan, Carme; Sala, Ilaria; Bosch, Núria; Guigó, Roderic; Johnson, RoryBMC genomics.2015;26493208
Synchronized age-related gene expression changes across multiple tissues in human and the link to complex diseases.Yang, Jialiang; Huang, Tao; Petralia, Francesca; Long, Quan; Zhang, Bin; Argmann, Carmen; Zhao, Yong; Mobbs, Charles V; GTEx Consortium; Schadt, Eric E; Zhu, Jun; Tu, ZhidongScientific reports.2015;26477495
Functional genomics bridges the gap between quantitative genetics and molecular biology.Lappalainen, TuuliGenome research.2015 Oct;1427-3126430152
BAYESIAN METHODS FOR GENETIC ASSOCIATION ANALYSIS WITH HETEROGENEOUS SUBGROUPS: FROM META-ANALYSES TO GENE-ENVIRONMENT INTERACTIONS.Wen, Xiaoquan; Stephens, MatthewThe annals of applied statistics.2014;176-20326413181
The origins, determinants, and consequences of human mutations.Shendure, Jay; Akey, Joshua MScience (New York, N.Y.).2015 Sep 25;1478-8326404824
Tools and best practices for data processing in allelic expression analysis.Castel, Stephane E; Levy-Moonshine, Ami; Mohammadi, Pejman; Banks, Eric; Lappalainen, TuuliGenome biology.2015;26381377
WASP: allele-specific software for robust molecular quantitative trait locus discovery.van de Geijn, Bryce; McVicker, Graham; Gilad, Yoav; Pritchard, Jonathan KNature methods.2015 Nov;1061-326366987
Population Variation and Genetic Control of Modular Chromatin Architecture in Humans.Waszak, Sebastian M; Delaneau, Olivier; Gschwind, Andreas R; Kilpinen, Helena; Raghav, Sunil K; Witwicki, Robert M; Orioli, Andrea; Wiederkehr, Michael; Panousis, Nikolaos I; Yurovsky, Alisa; Romano-Palumbo, Luciana; Planchon, Alexandra; Bielser, Deborah; Padioleau, Ismael; Udin, Gilles; Thurnheer, Sarah; Hacker, David; Hernandez, Nouria; Reymond, Alexandre; Deplancke, Bart; Dermitzakis, Emmanouil TCell.2015 Aug 27;1039-5026300124
Integrative analysis of RNA, translation, and protein levels reveals distinct regulatory variation across humans.Cenik, Can; Cenik, Elif Sarinay; Byeon, Gun W; Grubert, Fabian; Candille, Sophie I; Spacek, Damek; Alsallakh, Bilal; Tilgner, Hagen; Araya, Carlos L; Tang, Hua; Ricci, Emiliano; Snyder, Michael PGenome research.2015 Nov;1610-2126297486
A robust blood gene expression-based prognostic model for castration-resistant prostate cancer.Wang, Li; Gong, Yixuan; Chippada-Venkata, Uma; Heck, Matthias Michael; Retz, Margitta; Nawroth, Roman; Galsky, Matthew; Tsao, Che-Kai; Schadt, Eric; de Bono, Johann; Olmos, David; Zhu, Jun; Oh, William KBMC medicine.2015;26297150
A gene-based association method for mapping traits using reference transcriptome data.Gamazon, Eric R; Wheeler, Heather E; Shah, Kaanan P; Mozaffari, Sahar V; Aquino-Michaels, Keston; Carroll, Robert J; Eyler, Anne E; Denny, Joshua C; GTEx Consortium; Nicolae, Dan L; Cox, Nancy J; Im, Hae KyungNature genetics.2015 Sep;1091-826258848
A permutation approach for selecting the penalty parameter in penalized model selection.Sabourin, Jeremy A; Valdar, William; Nobel, Andrew BBiometrics.2015 Dec;1185-9426243050
Rare double sex and mab-3-related transcription factor 1 regulatory variants in severe spermatogenic failure.Lima, A C; Carvalho, F; Gonçalves, J; Fernandes, S; Marques, P I; Sousa, M; Barros, A; Seixas, S; Amorim, A; Conrad, D F; Lopes, A MAndrology.2015 Sep;26139570
Genetic determinants of telomere length and risk of common cancers: a Mendelian randomization study.Zhang, Chenan; Doherty, Jennifer A; Burgess, Stephen; Hung, Rayjean J; Lindström, Sara; Kraft, Peter; Gong, Jian; Amos, Christopher I; Sellers, Thomas A; Monteiro, Alvaro N A; Chenevix-Trench, Georgia; Bickeböller, Heike; Risch, Angela; Brennan, Paul; Mckay, James D; Houlston, Richard S; Landi, Maria Teresa; Timofeeva, Maria N; Wang, Yufei; Heinrich, Joachim; Kote-Jarai, Zsofia; Eeles, Rosalind A; Muir, Ken; Wiklund, Fredrik; Grönberg, Henrik; Berndt, Sonja I; Chanock, Stephen J; Schumacher, Fredrick; Haiman, Christopher A; Henderson, Brian E; Amin Al Olama, Ali; Andrulis, Irene L; Hopper, John L; Chang-Claude, Jenny; John, Esther M; Malone, Kathleen E; Gammon, Marilie D; Ursin, Giske; Whittemore, Alice S; Hunter, David J; Gruber, Stephen B; Knight, Julia A; Hou, Lifang; Le Marchand, Loic; Newcomb, Polly A; Hudson, Thomas J; Chan, Andrew T; Li, Li; Woods, Michael O; Ahsan, Habibul; Pierce, Brandon L; GECCO and GAME-ON Network: CORECT, DRIVE, ELLIPSE, FOCI, and TRICLHuman molecular genetics.2015 Sep 15;5356-6626138067
Discovering What Dimensionality Reduction Really Tells Us About RNA-Seq Data.Simmons, Sean; Peng, Jian; Bienkowska, Jadwiga; Berger, BonnieJournal of computational biology : a journal of computational molecular cell biology.2015 Aug;715-2826098139
Identification of causal genes for complex traits.Hormozdiari, Farhad; Kichaev, Gleb; Yang, Wen-Yun; Pasaniuc, Bogdan; Eskin, EleazarBioinformatics (Oxford, England).2015 Jun 15;i206-1326072484
Posterior predictive checks to quantify lack-of-fit in admixture models of latent population structure.Mimno, David; Blei, David M; Engelhardt, Barbara EProceedings of the National Academy of Sciences of the United States of America.2015 Jun 30;E3441-5026071445
Activity-Induced DNA Breaks Govern the Expression of Neuronal Early-Response Genes.Madabhushi, Ram; Gao, Fan; Pfenning, Andreas R; Pan, Ling; Yamakawa, Satoko; Seo, Jinsoo; Rueda, Richard; Phan, Trongha X; Yamakawa, Hidekuni; Pao, Ping-Chieh; Stott, Ryan T; Gjoneska, Elizabeta; Nott, Alexi; Cho, Sukhee; Kellis, Manolis; Tsai, Li-HueiCell.2015 Jun 18;1592-60526052046
The projack: a resampling approach to correct for ranking bias in high-throughput studies.Zhou, Yi-Hui; Wright, Fred ABiostatistics (Oxford, England).2016 Jan;54-6426040912
Accurate and fast multiple-testing correction in eQTL studies.Sul, Jae Hoon; Raj, Towfique; de Jong, Simone; de Bakker, Paul I W; Raychaudhuri, Soumya; Ophoff, Roel A; Stranger, Barbara E; Eskin, Eleazar; Han, BuhmAmerican journal of human genetics.2015 Jun 4;857-6826027500
Using whole-genome sequences of the LG/J and SM/J inbred mouse strains to prioritize quantitative trait genes and nucleotides.Nikolskiy, Igor; Conrad, Donald F; Chun, Sung; Fay, Justin C; Cheverud, James M; Lawson, Heather ABMC genomics.2015 May 28;26016481
Sharing and Specificity of Co-expression Networks across 35 Human Tissues.Pierson, Emma; GTEx Consortium; Koller, Daphne; Battle, Alexis; Mostafavi, Sara; Ardlie, Kristin G; Getz, Gad; Wright, Fred A; Kellis, Manolis; Volpi, Simona; Dermitzakis, Emmanouil TPLoS computational biology.2015 May;e100422025970446
Human genomics. Effect of predicted protein-truncating genetic variants on the human transcriptome.Rivas, Manuel A; Pirinen, Matti; Conrad, Donald F; Lek, Monkol; Tsang, Emily K; Karczewski, Konrad J; Maller, Julian B; Kukurba, Kimberly R; DeLuca, David S; Fromer, Menachem; Ferreira, Pedro G; Smith, Kevin S; Zhang, Rui; Zhao, Fengmei; Banks, Eric; Poplin, Ryan; Ruderfer, Douglas M; Purcell, Shaun M; Tukiainen, Taru; Minikel, Eric V; Stenson, Peter D; Cooper, David N; Huang, Katharine H; Sullivan, Timothy J; Nedzel, Jared; GTEx Consortium; Geuvadis Consortium; Bustamante, Carlos D; Li, Jin Billy; Daly, Mark J; Guigo, Roderic; Donnelly, Peter; Ardlie, Kristin; Sammeth, Michael; Dermitzakis, Emmanouil T; McCarthy, Mark I; Montgomery, Stephen B; Lappalainen, Tuuli; MacArthur, Daniel GScience (New York, N.Y.).2015 May 8;666-925954003
Human genomics. The human transcriptome across tissues and individuals.Melé, Marta; Ferreira, Pedro G; Reverter, Ferran; DeLuca, David S; Monlong, Jean; Sammeth, Michael; Young, Taylor R; Goldmann, Jakob M; Pervouchine, Dmitri D; Sullivan, Timothy J; Johnson, Rory; Segrè, Ayellet V; Djebali, Sarah; Niarchou, Anastasia; GTEx Consortium; Wright, Fred A; Lappalainen, Tuuli; Calvo, Miquel; Getz, Gad; Dermitzakis, Emmanouil T; Ardlie, Kristin G; Guigó, RodericScience (New York, N.Y.).2015 May 8;660-525954002
Human genomics. The Genotype-Tissue Expression (GTEx) pilot analysis: multitissue gene regulation in humans.GTEx ConsortiumScience (New York, N.Y.).2015 May 8;648-6025954001
The landscape of genomic imprinting across diverse adult human tissues.Baran, Yael; Subramaniam, Meena; Biton, Anne; Tukiainen, Taru; Tsang, Emily K; Rivas, Manuel A; Pirinen, Matti; Gutierrez-Arcelus, Maria; Smith, Kevin S; Kukurba, Kim R; Zhang, Rui; Eng, Celeste; Torgerson, Dara G; Urbanek, Cydney; GTEx Consortium; Li, Jin Billy; Rodriguez-Santana, Jose R; Burchard, Esteban G; Seibold, Max A; MacArthur, Daniel G; Montgomery, Stephen B; Zaitlen, Noah A; Lappalainen, TuuliGenome research.2015 Jul;927-3625953952
The impact of human copy number variation on gene expression.Gamazon, Eric R; Stranger, Barbara EBriefings in functional genomics.2015 Apr 27;25922366
Cross-population joint analysis of eQTLs: fine mapping and functional annotation.Wen, Xiaoquan; Luca, Francesca; Pique-Regi, RogerPLoS genetics.2015 Apr;e100517625906321
Gene-Gene Interactions Detection Using a Two-stage Model.Wang, Zhanyong; Sul, Jae Hoon; Snir, Sagi; Lozano, Jose A; Eskin, EleazarJournal of computational biology : a journal of computational molecular cell biology.2015 Jun;563-7625871811
New basal cell carcinoma susceptibility loci.Stacey, Simon N; Helgason, Hannes; Gudjonsson, Sigurjon A; Thorleifsson, Gudmar; Zink, Florian; Sigurdsson, Asgeir; Kehr, Birte; Gudmundsson, Julius; Sulem, Patrick; Sigurgeirsson, Bardur; Benediktsdottir, Kristrun R; Thorisdottir, Kristin; Ragnarsson, Rafn; Fuentelsaz, Victoria; Corredera, Cristina; Gilaberte, Yolanda; Grasa, Matilde; Planelles, Dolores; Sanmartin, Onofre; Rudnai, Peter; Gurzau, Eugene; Koppova, Kvetoslava; Nexø, Bjørn A; Tjønneland, Anne; Overvad, Kim; Jonasson, Jon G; Tryggvadottir, Laufey; Johannsdottir, Hrefna; Kristinsdottir, Anna M; Stefansson, Hreinn; Masson, Gisli; Magnusson, Olafur T; Halldorsson, Bjarni V; Kong, Augustine; Rafnar, Thorunn; Thorsteinsdottir, Unnur; Vogel, Ulla; Kumar, Rajiv; Nagore, Eduardo; Mayordomo, José I; Gudbjartsson, Daniel F; Olafsson, Jon H; Stefansson, KariNature communications.2015;25855136
Genetic conflict reflected in tissue-specific maps of genomic imprinting in human and mouse.Babak, Tomas; DeVeale, Brian; Tsang, Emily K; Zhou, Yiqi; Li, Xin; Smith, Kevin S; Kukurba, Kim R; Zhang, Rui; Li, Jin Billy; van der Kooy, Derek; Montgomery, Stephen B; Fraser, Hunter BNature genetics.2015 May;544-925848752
Assessing allele-specific expression across multiple tissues from RNA-seq read data.Pirinen, Matti; Lappalainen, Tuuli; Zaitlen, Noah A; GTEx Consortium; Dermitzakis, Emmanouil T; Donnelly, Peter; McCarthy, Mark I; Rivas, Manuel ABioinformatics (Oxford, England).2015 Aug 1;2497-50425819081
SCAN database: facilitating integrative analyses of cytosine modification and expression QTL.Zhang, Wei; Gamazon, Eric R; Zhang, Xu; Konkashbaev, Anuar; Liu, Cong; Szilágyi, Keely L; Dolan, M Eileen; Cox, Nancy JDatabase : the journal of biological databases and curation.2015;25818895
The Genotype-Tissue Expression (GTEx) Project: Linking Clinical Data with Molecular Analysis to Advance Personalized Medicine.Keen, Judy C; Moore, Helen MJournal of personalized medicine.2015 Feb 05;25809799
Bayesian model comparison in genetic association analysis: linear mixed modeling and SNP set testing.Wen, XiaoquanBiostatistics (Oxford, England).2015 Oct;701-1225796429
Hypothesis testing at the extremes: fast and robust association for high-throughput data.Zhou, Yi-Hui; Wright, Fred ABiostatistics (Oxford, England).2015 Jul;611-2525792622
A systems genetics study of swine illustrates mechanisms underlying human phenotypic traits.Zhu, Jun; Chen, Congying; Yang, Bin; Guo, Yuanmei; Ai, Huashui; Ren, Jun; Peng, Zhiyu; Tu, Zhidong; Yang, Xia; Meng, Qingying; Friend, Stephen; Huang, LushengBMC genomics.2015;25765547
Efficient multiple-trait association and estimation of genetic correlation using the matrix-variate linear mixed model.Furlotte, Nicholas A; Eskin, EleazarGenetics.2015 May;59-6825724382
Large-scale imputation of epigenomic datasets for systematic annotation of diverse human tissues.Ernst, Jason; Kellis, ManolisNature biotechnology.2015 Apr;364-7625690853
Impact of allele-specific peptides in proteome quantification.Wu, Linfeng; Snyder, MichaelProteomics. Clinical applications.2015 Apr;432-625676416
Coordinated regulatory variation associated with gestational hyperglycaemia regulates expression of the novel hexokinase HKDC1.Guo, Cong; Ludvik, Anton E; Arlotto, Michelle E; Hayes, M Geoffrey; Armstrong, Loren L; Scholtens, Denise M; Brown, Christopher D; Newgard, Christopher B; Becker, Thomas C; Layden, Brian T; Lowe, William L; Reddy, Timothy ENature communications.2015;25648650
Gene expression in transformed lymphocytes reveals variation in endomembrane and HLA pathways modifying cystic fibrosis pulmonary phenotypes.O'Neal, Wanda K; Gallins, Paul; Pace, Rhonda G; Dang, Hong; Wolf, Whitney E; Jones, Lisa C; Guo, XueLiang; Zhou, Yi-Hui; Madar, Vered; Huang, Jinyan; Liang, Liming; Moffatt, Miriam F; Cutting, Garry R; Drumm, Mitchell L; Rommens, Johanna M; Strug, Lisa J; Sun, Wei; Stonebraker, Jaclyn R; Wright, Fred A; Knowles, Michael RAmerican journal of human genetics.2015 Feb 5;318-2825640674
Memory efficient assembly of human genome.Hormozdiari, Farhad; Eskin, EleazarJournal of bioinformatics and computational biology.2015 Apr;25603998
(Epi)genomics approaches and their applications.Meissner, AlexanderMethods (San Diego, Calif.).2015 Jan 15;2-Jan25597875
A spatial haplotype copying model with applications to genotype imputation.Yang, Wen-Yun; Hormozdiari, Farhad; Eskin, Eleazar; Pasaniuc, BogdanJournal of computational biology : a journal of computational molecular cell biology.2015 May;451-6225526526
Cross-tissue and tissue-specific eQTLs: partitioning the heritability of a complex trait.Torres, Jason M; Gamazon, Eric R; Parra, Esteban J; Below, Jennifer E; Valladares-Salgado, Adan; Wacher, Niels; Cruz, Miguel; Hanis, Craig L; Cox, Nancy JAmerican journal of human genetics.2014 Nov 6;521-3425439722
Fine-mapping additive and dominant SNP effects using group-LASSO and fractional resample model averaging.Sabourin, Jeremy; Nobel, Andrew B; Valdar, WilliamGenetic epidemiology.2015 Feb;77-8825417853
Comparison of the transcriptional landscapes between human and mouse tissues.Lin, Shin; Lin, Yiing; Nery, Joseph R; Urich, Mark A; Breschi, Alessandra; Davis, Carrie A; Dobin, Alexander; Zaleski, Christopher; Beer, Michael A; Chapman, William C; Gingeras, Thomas R; Ecker, Joseph R; Snyder, Michael PProceedings of the National Academy of Sciences of the United States of America.2014 Dec 2;17224-925413365
Structural architecture of SNP effects on complex traits.Gamazon, Eric R; Cox, Nancy J; Davis, Lea KAmerican journal of human genetics.2014 Nov 6;477-8925307299
Allelic mapping bias in RNA-sequencing is not a major confounder in eQTL studies.Panousis, Nikolaos I; Gutierrez-Arcelus, Maria; Dermitzakis, Emmanouil T; Lappalainen, TuuliGenome biology.2014;25239376
Genome-wide interrogation of longitudinal FEV1 in children with asthma.Wu, Kehua; Gamazon, Eric R; Im, Hae Kyung; Geeleher, Paul; White, Steven R; Solway, Julian; Clemmer, George L; Weiss, Scott T; Tantisira, Kelan G; Cox, Nancy J; Ratain, Mark J; Huang, R StephanieAmerican journal of respiratory and critical care medicine.2014 Sep 15;619-2725221879
Space Time Clustering and the Permutation Moments of Quadratic Form.Zhou, Yi-Hui; Mayhew, Gregory; Sun, Zhibin; Xu, Xiaolin; Zou, Fei; Wright, Fred AStat.2013 Jan 1;292-30225210205
Identification and characterization of novel associations in the CASP8/ALS2CR12 region on chromosome 2 with breast cancer risk.Human molecular genetics.2015 Jan 1;285-9825168388
Cross-disorder genome-wide analyses suggest a complex genetic relationship between Tourette's syndrome and OCD.Yu, Dongmei; Mathews, Carol A; Scharf, Jeremiah M; Neale, Benjamin M; Davis, Lea K; Gamazon, Eric R; Derks, Eske M; Evans, Patrick; Edlund, Christopher K; Crane, Jacquelyn; Fagerness, Jesen A; Osiecki, Lisa; Gallagher, Patience; Gerber, Gloria; Haddad, Stephen; Illmann, Cornelia; McGrath, Lauren M; Mayerfeld, Catherine; Arepalli, Sampath; Barlassina, Cristina; Barr, Cathy L; Bellodi, Laura; Benarroch, Fortu; Berrio, Gabriel Bedoya; Bienvenu, O Joseph; Black, Donald W; Bloch, Michael H; Brentani, Helena; Bruun, Ruth D; Budman, Cathy L; Camarena, Beatriz; Campbell, Desmond D; Cappi, Carolina; Silgado, Julio C Cardona; Cavallini, Maria C; Chavira, Denise A; Chouinard, Sylvain; Cook, Edwin H; Cookson, M R; Coric, Vladimir; Cullen, Bernadette; Cusi, Daniele; Delorme, Richard; Denys, Damiaan; Dion, Yves; Eapen, Valsama; Egberts, Karin; Falkai, Peter; Fernandez, Thomas; Fournier, Eduardo; Garrido, Helena; Geller, Daniel; Gilbert, Donald L; Girard, Simon L; Grabe, Hans J; Grados, Marco A; Greenberg, Benjamin D; Gross-Tsur, Varda; Grunblatt, Edna; Hardy, John; Heiman, Gary A; Hemmings, Sian M J; Herrera, Luis D; Hezel, Dianne M; Hoekstra, Pieter J; Jankovic, Joseph; Kennedy, James L; King, Robert A; Konkashbaev, Anuar I; Kremeyer, Barbara; Kurlan, Roger; Lanzagorta, Nuria; Leboyer, Marion; Leckman, James F; Lennertz, Leonhard; Liu, Chunyu; Lochner, Christine; Lowe, Thomas L; Lupoli, Sara; Macciardi, Fabio; Maier, Wolfgang; Manunta, Paolo; Marconi, Maurizio; McCracken, James T; Mesa Restrepo, Sandra C; Moessner, Rainald; Moorjani, Priya; Morgan, Jubel; Muller, Heike; Murphy, Dennis L; Naarden, Allan L; Nurmi, Erika; Ochoa, William Cornejo; Ophoff, Roel A; Pakstis, Andrew J; Pato, Michele T; Pato, Carlos N; Piacentini, John; Pittenger, Christopher; Pollak, Yehuda; Rauch, Scott L; Renner, Tobias; Reus, Victor I; Richter, Margaret A; Riddle, Mark A; Robertson, Mary M; Romero, Roxana; Rosario, Maria C; Rosenberg, David; Ruhrmann, Stephan; Sabatti, Chiara; Salvi, Erika; Sampaio, Aline S; Samuels, Jack; Sandor, Paul; Service, Susan K; Sheppard, Brooke; Singer, Harvey S; Smit, Jan H; Stein, Dan J; Strengman, Eric; Tischfield, Jay A; Turiel, Maurizio; Valencia Duarte, Ana V; Vallada, Homero; Veenstra-VanderWeele, Jeremy; Walitza, Susanne; Wang, Ying; Weale, Mike; Weiss, Robert; Wendland, Jens R; Westenberg, Herman G M; Shugart, Yin Yao; Hounie, Ana G; Miguel, Euripedes C; Nicolini, Humberto; Wagner, Michael; Ruiz-Linares, Andres; Cath, Danielle C; McMahon, William; Posthuma, Danielle; Oostra, Ben A; Nestadt, Gerald; Rouleau, Guy A; Purcell, Shaun; Jenike, Michael A; Heutink, Peter; Hanna, Gregory L; Conti, David V; Arnold, Paul D; Freimer, Nelson B; Stewart, S Evelyn; Knowles, James A; Cox, Nancy J; Pauls, David LThe American journal of psychiatry.2015 Jan;82-9325158072
Convergence of Sample Eigenvalues, Eigenvectors, and Principal Component Scores for Ultra-High Dimensional Data.Lee, Seunggeun; Zou, Fei; Wright, Fred ABiometrika2014 Jun484-49025143634
IRBIS: a systematic search for conserved complementarity.Pervouchine, Dmitri DRNA (New York, N.Y.).2014 Oct;1519-3125142064
Identification of genetic variants associated with alternative splicing using sQTLseekeR.Monlong, Jean; Calvo, Miquel; Ferreira, Pedro G; Guigo, RodericNature communications.2014;25140736
Identifying causal variants at loci with multiple signals of association.Hormozdiari, Farhad; Kostem, Emrah; Kang, Eun Yong; Pasaniuc, Bogdan; Eskin, EleazarGenetics.2014 Oct;497-50825104515
Transcriptome assembly and quantification from Ion Torrent RNA-Seq data.Mangul, Serghei; Caciula, Adrian; Al Seesi, Sahar; Brinza, Dumitru; M?ndoiu, Ion; Zelikovsky, AlexBMC genomics.2014;S725082147
Common dysregulation network in the human prefrontal cortex underlies two neurodegenerative diseases.Narayanan, Manikandan; Huynh, Jimmy L; Wang, Kai; Yang, Xia; Yoo, Seungyeul; McElwee, Joshua; Zhang, Bin; Zhang, Chunsheng; Lamb, John R; Xie, Tao; Suver, Christine; Molony, Cliona; Melquist, Stacey; Johnson, Andrew D; Fan, Guoping; Stone, David J; SchadtMolecular systems biology201474325080494
Putative cis-regulatory drivers in colorectal cancer.Ongen, Halit; Andersen, Claus L; Bramsen, Jesper B; Oster, Bodil; Rasmussen, Mads H; Ferreira, Pedro G; Sandoval, Juan; Vidal, Enrique; Whiffin, Nicola; Planchon, Alexandra; Padioleau, Ismael; Bielser, Deborah; Romano, Luciana; Tomlinson, Ian; Houlston, Richard S; Esteller, Manel; Orntoft, Torben F; Dermitzakis, Emmanouil TNature.2014 Aug 07;25079323
Fine mapping and functional studies of risk variants for type 1 diabetes at chromosome 16p13.13.Tomlinson 4th, M Joseph; Pitsillides, Achilleas; Pickin, Rebecca; Mika, Matthew; Keene, Keith L; Hou, Xuanlin; Mychaleckyj, Josyf; Chen, Wei-Min; Concannon, Patrick; Onengut-Gumuscu, SunaDiabetes.2014 Dec;4360-825008175
Synthesis of 53 tissue and cell line expression QTL datasets reveals master eQTLs.Zhang, Xiaoling; Gierman, Hinco J; Levy, Daniel; Plump, Andrew; Dobrin, Radu; Goring, Harald H H; Curran, Joanne E; Johnson, Matthew P; Blangero, John; Kim, Stuart K; O'Donnell, Christopher J; Emilsson, Valur; Johnson, Andrew DBMC genomics.2014 Jun 27;24973796
Accurate viral population assembly from ultra-deep sequencing data.Mangul, Serghei; Wu, Nicholas C; Mancuso, Nicholas; Zelikovsky, Alex; Sun, Ren; Eskin, EleazarBioinformatics (Oxford, England)2014 Jun 15i329-3724932001
Allele-specific expression and eQTL analysis in mouse adipose tissue.Hasin-Brumshtein, Yehudit; Hormozdiari, Farhad; Martin, Lisa; van Nas, Atila; Eskin, Eleazar; Lusis, Aldons J; Drake, Thomas ABMC genomics201447124927774
GWAS to Sequencing: Divergence in Study Design and Analysis.King, Christopher Ryan; Nicolae, Dan LGenes.2014;460-7624879455
Partial correlation matrix estimation using ridge penalty followed by thresholding and re-estimation.Ha, Min Jin; Sun, WeiBiometrics2014 May 20NULL24845967
Poly-Omic Prediction of Complex Traits: OmicKriging.Wheeler, Heather E; Aquino-Michaels, Keston; Gamazon, Eric R; Trubetskoy, Vassily V; Dolan, M Eileen; Huang, R Stephanie; Cox, Nancy J; Im, Hae KyungGenetic epidemiology2014 May 2NULL24799323
Bicc1 is a genetic determinant of osteoblastogenesis and bone mineral density.Mesner, Larry D; Ray, Brianne; Hsu, Yi-Hsiang; Manichaikul, Ani; Lum, Eric; Bryda, Elizabeth C; Rich, Stephen S; Rosen, Clifford J; Criqui, Michael H; Allison, Matthew; Budoff, Matthew J; Clemens, Thomas L; Farber, Charles RThe Journal of clinical investigation2014 Jun 22736-4924789909
Determining causality and consequence of expression quantitative trait loci.Battle, A; Montgomery, S BHuman genetics2014 Jun727-3524770875
Guidelines for investigating causality of sequence variants in human disease.MacArthur, D G; Manolio, T A; Dimmock, D P; Rehm, H L; Shendure, J; Abecasis, G R; Adams, D R; Altman, R B; Antonarakis, S E; Ashley, E A; Barrett, J C; Biesecker, L G; Conrad, D F; Cooper, G M; Cox, N J; Daly, M J; Gerstein, M B; Goldstein, D B; Hirschhorn, J N; Leal, S M; Pennacchio, L A; Stamatoyannopoulos, J A; Sunyaev, S R; Valle, D; Voight, B F; Winckler, W; Gunter, CNature.2014 Apr 24;469-7624759409
Validating single-cell genomics for the study of renal development.Jain, Sanjay; Noordam, Michiel J; Hoshi, Masato; Vallania, Francesco L; Conrad, Donald FKidney international.2014 Nov;1049-5524759149
Heritability and genomics of gene expression in peripheral blood.Wright, Fred A; Sullivan, Patrick F; Brooks, Andrew I; Zou, Fei; Sun, Wei; Xia, Kai; Madar, Vered; Jansen, Rick; Chung, Wonil; Zhou, Yi-Hui; Abdellaoui, Abdel; Batista, Sandra; Butler, Casey; Chen, Guanhua; Chen, Ting-Huei; D'Ambrosio, David; Gallins, PauNature genetics2014 May430-724728292
Genetic variation associated with euphorigenic effects of d-amphetamine is associated with diminished risk for schizophrenia and attention deficit hyperactivity disorder.Hart, Amy B; Gamazon, Eric R; Engelhardt, Barbara E; Sklar, Pamela; Kahler, Anna K; Hultman, Christina M; Sullivan, Patrick F; Neale, Benjamin M; Faraone, Stephen V; Psychiatric Genomics Consortium: ADHD Subgroup; de Wit, Harriet; Cox, Nancy J; Palmer, AbProceedings of the National Academy of Sciences of the United States of America2014 Apr 225968-7324711425
Effectively identifying regulatory hotspots while capturing expression heterogeneity in gene expression studies.Joo, Jong Wha J; Sul, Jae Hoon; Han, Buhm; Ye, Chun; Eskin, EleazarGenome biology2014 Apr 7R6124708878
Obesity-associated variants within FTO form long-range functional connections with IRX3.Smemo, Scott; Tena, Juan J; Kim, Kyoung-Han; Gamazon, Eric R; Sakabe, Noboru J; Gomez-Marin, Carlos; Aneas, Ivy; Credidio, Flavia L; Sobreira, Debora R; Wasserman, Nora F; Lee, Ju Hee; Puviindran, Vijitha; Tam, Davis; Shen, Michael; Son, Joe Eun; Vakili, Nature2014 Mar 20371-524646999
A genome-wide association study of early-onset breast cancer identifies PFKM as a novel breast cancer gene and supports a common genetic spectrum for breast cancer at any age.Ahsan, Habibul; Halpern, Jerry; Kibriya, Muhammad G; Pierce, Brandon L; Tong, Lin; Gamazon, Eric; McGuire, Valerie; Felberg, Anna; Shi, Jianxin; Jasmine, Farzana; Roy, Shantanu; Brutus, Rachelle; Argos, Maria; Melkonian, Stephanie; Chang-Claude, Jenny; AnCancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology2014 Apr658-6924493630
Meta-analysis identifies gene-by-environment interactions as demonstrated in a study of 4,965 mice.Kang, Eun Yong; Han, Buhm; Furlotte, Nicholas; Joo, Jong Wha J; Shih, Diana; Davis, Richard C; Lusis, Aldons J; Eskin, EleazarPLoS genetics2014 Jane100402224415945
RNA-Seq optimization with eQTL gold standards.Ellis, Shannon E; Gupta, Simone; Ashar, Foram N; Bader, Joel S; West, Andrew B; Arking, Dan EBMC genomics201389224341889
Type I interferon signaling genes in recurrent major depression: increased expression detected by whole-blood RNA sequencing.Mostafavi, S; Battle, A; Zhu, X; Potash, J B; Weissman, M M; Shi, J; Beckman, K; Haudenschild, C; McCormick, C; Mei, R; Gameroff, M J; Gindes, H; Adams, P; Goes, F S; Mondimore, F M; MacKinnon, D F; Notes, L; Schweizer, B; Furman, D; Montgomery, S B; Urban, A E; Koller, D; Levinson, D FMolecular psychiatry.2014 Dec;24296977
Epigenome-wide differences in pathology-free regions of multiple sclerosis-affected brains.Huynh, Jimmy L; Garg, Paras; Thin, Tin Htwe; Yoo, Seungyeul; Dutta, Ranjan; Trapp, Bruce D; Haroutunian, Vahram; Zhu, Jun; Donovan, Michael J; Sharp, Andrew J; Casaccia, PatriziaNature neuroscience2014 Jan121-3024270187
Partitioning the heritability of Tourette syndrome and obsessive compulsive disorder reveals differences in genetic architecture.Davis, Lea K; Yu, Dongmei; Keenan, Clare L; Gamazon, Eric R; Konkashbaev, Anuar I; Derks, Eske M; Neale, Benjamin M; Yang, Jian; Lee, S Hong; Evans, Patrick; Barr, Cathy L; Bellodi, Laura; Benarroch, Fortu; Berrio, Gabriel Bedoya; Bienvenu, Oscar J; BlochPLoS genetics2013 Octe100386424204291
Quantitative allelic test-a fast test for very large association studies.Lee, Sang Mee; Karrison, Theodore G; Cox, Nancy J; Im, Hae KyungGenetic epidemiology2013 Dec831-924185610
Reduced burden of very large and rare CNVs in bipolar affective disorder.Grozeva, Detelina; Kirov, George; Conrad, Donald F; Barnes, Chris P; Hurles, Matthew; Owen, Michael J; O'Donovan, Michael C; Craddock, NickBipolar disorders.2013 Dec;24127788
Characterizing the genetic basis of transcriptome diversity through RNA-sequencing of 922 individuals.Battle, Alexis; Mostafavi, Sara; Zhu, Xiaowei; Potash, James B; Weissman, Myrna M; McCormick, Courtney; Haudenschild, Christian D; Beckman, Kenneth B; Shi, Jianxin; Mei, Rui; Urban, Alexander E; Montgomery, Stephen B; Levinson, Douglas F; Koller, DaphneGenome research2013 Nov 27NULL24092820
Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories.'t Hoen, Peter A C; Friedlander, Marc R; Almlof, Jonas; Sammeth, Michael; Pulyakhina, Irina; Anvar, Seyed Yahya; Laros, Jeroen F J; Buermans, Henk P J; Karlberg, Olof; Brannvall, Mathias; GEUVADIS Consortium; den Dunnen, Johan T; van Ommen, Gert-Jan B; GuNature biotechnology2013 Nov1015-2224037425
Transcriptome and genome sequencing uncovers functional variation in humans.Lappalainen, Tuuli; Sammeth, Michael; Friedlander, Marc R; 't Hoen, Peter A C; Monlong, Jean; Rivas, Manuel A; Gonzalez-Porta, Mar; Kurbatova, Natalja; Griebel, Thasso; Ferreira, Pedro G; Barann, Matthias; Wieland, Thomas; Greger, Liliana; van Iterson, MaNature2013 Sep 26506-1124037378
Efficiently identifying significant associations in genome-wide association studies.Kostem, Emrah; Eskin, EleazarJournal of computational biology : a journal of computational molecular cell biology.2013 Oct;817-3024033261
Gene expression changes with age in skin, adipose tissue, blood and brain.Glass, Daniel; Viñuela, Ana; Davies, Matthew N; Ramasamy, Adaikalavan; Parts, Leopold; Knowles, David; Brown, Andrew A; Hedman, Asa K; Small, Kerrin S; Buil, Alfonso; Grundberg, Elin; Nica, Alexandra C; Di Meglio, Paola; Nestle, Frank O; Ryten, Mina; UK Brain Expression consortium; MuTHER consortium; Durbin, Richard; McCarthy, Mark I; Deloukas, Panagiotis; Dermitzakis, Emmanouil T; Weale, Michael E; Bataille, Veronique; Spector, Tim DGenome biology.2013;R7523889843
SCAN: a systems biology approach to pharmacogenomic discovery.Gamazon, Eric R; Huang, R Stephanie; Cox, Nancy JMethods in molecular biology (Clifton, N.J.)2013213-2423824859
DNase I-hypersensitive exons colocalize with promoters and distal regulatory elements.Mercer, Tim R; Edwards, Stacey L; Clark, Michael B; Neph, Shane J; Wang, Hao; Stergachis, Andrew B; John, Sam; Sandstrom, Richard; Li, Guoliang; Sandhu, Kuljeet S; Ruan, Yijun; Nielsen, Lars K; Mattick, John S; Stamatoyannopoulos, John ANature genetics2013 Aug852-923793028
A genome-wide integrative study of microRNAs in human liver.Gamazon, Eric R; Innocenti, Federico; Wei, Rongrong; Wang, Libo; Zhang, Min; Mirkov, Snezana; Ramirez, Jacqueline; Huang, R Stephanie; Cox, Nancy J; Ratain, Mark J; Liu, WanqingBMC genomics201339523758991
Integrative genomics: quantifying significance of phenotype-genotype relationships from multiple sources of high-throughput data.Gamazon, Eric R; Huang, R Stephanie; Dolan, M Eileen; Cox, Nancy J; Im, Hae KyungFrontiers in genetics.2012;23755062
Validation of Monte Carlo estimates of three-class ideal observer operating points for normal data.Edwards, Darrin CAcademic radiology2013 Jul908-1423747155
JOINT AND INDIVIDUAL VARIATION EXPLAINED (JIVE) FOR INTEGRATED ANALYSIS OF MULTIPLE DATA TYPES.Lock, Eric F; Hoadley, Katherine A; Marron, J S; Nobel, Andrew BThe annals of applied statistics2013 Mar 1523-54223745156
The Genotype-Tissue Expression (GTEx) project.Lonsdale J, Thomas J, Salvatore M, Phillips R, Lo E, Shad S, Hasz R, Walters G, Garcia F, Young N, Foster B, Moser M, Karasik E, Gillard B, Ramsey K, Sullivan S, Bridge J, Magazine H, Syron J, Fleming J, Siminoff L, Traino H, et al.Nat Genet2013 May 29580-523715323
A statistical framework for joint eQTL analysis in multiple tissues.Flutre, Timothee; Wen, Xiaoquan; Pritchard, Jonathan; Stephens, MatthewPLoS genetics2013 Maye100348623671422
eQTL Mapping Using RNA-seq Data.Sun, Wei; Hu, YijuanStatistics in biosciences2013 May 1198-21923667399
Marbled inflation from population structure in gene-based association studies with rare variants.Liu, Qianying; Nicolae, Dan L; Chen, Lin SGenetic epidemiology2013 Apr286-9223468125
Transcriptome analyses of primitively eusocial wasps reveal novel insights into the evolution of sociality and the origin of alternative phenotypes.Ferreira, Pedro G; Patalano, Solenn; Chauhan, Ritika; Ffrench-Constant, Richard; Gabaldón, Toni; Guigó, Roderic; Sumner, SeirianGenome biology.2013;R2023442883
Network models of genome-wide association studies uncover the topological centrality of protein interactions in complex diseases.Lee, Younghee; Li, Haiquan; Li, Jianrong; Rebman, Ellen; Achour, Ikbel; Regan, Kelly E; Gamazon, Eric R; Chen, James L; Yang, Xinan Holly; Cox, Nancy J; Lussier, Yves AJournal of the American Medical Informatics Association : JAMIA2013 Jul-Aug619-2923355459
Modeling causality for pairs of phenotypes in system genetics.Neto, Elias Chaibub; Broman, Aimee T; Keller, Mark P; Attie, Alan D; Zhang, Bin; Zhu, Jun; Yandell, Brian SGenetics2013 Mar1003-1323288936
Trans-population analysis of genetic mechanisms of ethnic disparities in neuroblastoma survival.Gamazon, Eric R; Pinto, Navin; Konkashbaev, Anuar; Im, Hae Kyung; Diskin, Sharon J; London, Wendy B; Maris, John M; Dolan, M Eileen; Cox, Nancy J; Cohn, Susan LJournal of the National Cancer Institute2013 Feb 20302-923243203
Integrative analysis of a cross-loci regulation network identifies App as a gene regulating insulin secretion from pancreatic islets.Tu, Zhidong; Keller, Mark P; Zhang, Chunsheng; Rabaglia, Mary E; Greenawalt, Danielle M; Yang, Xia; Wang, I-Ming; Dai, Hongyue; Bruss, Matthew D; Lum, Pek Y; Zhou, Yun-Ping; Kemp, Daniel M; Kendziorski, Christina; Yandell, Brian S; Attie, Alan D; Schadt, Eric E; Zhu, JunPLoS genetics2012e100310723236292
Controls of nucleosome positioning in the human genome.Gaffney, Daniel J; McVicker, Graham; Pai, Athma A; Fondufe-Mittendorf, Yvonne N; Lewellen, Noah; Michelini, Katelyn; Widom, Jonathan; Gilad, Yoav; Pritchard, Jonathan KPLoS genetics2012e100303623166509
An exponential combination procedure for set-based association tests in sequencing studies.Chen, Lin S; Hsu, Li; Gamazon, Eric R; Cox, Nancy J; Nicolae, Dan LAmerican journal of human genetics2012 Dec 7977-8623159251
Variants affecting exon skipping contribute to complex traits.Lee, Younghee; Gamazon, Eric R; Rebman, Ellen; Lee, Yeunsook; Lee, Sanghyuk; Dolan, M Eileen; Cox, Nancy J; Lussier, Yves APLoS genetics2012e100299823133393
The GEM mapper: fast, accurate and versatile alignment by filtration.Marco-Sola, Santiago; Sammeth, Michael; Guigo, Roderic; Ribeca, PaoloNature methods2012 Dec1185-823103880
Sex-biased genetic effects on gene regulation in humans.Dimas, Antigone S; Nica, Alexandra C; Montgomery, Stephen B; Stranger, Barbara E; Raj, Towfique; Buil, Alfonso; Giger, Thomas; Lappalainen, Tuuli; Gutierrez-Arcelus, Maria; MuTHER Consortium; McCarthy, Mark I; Dermitzakis, Emmanouil TGenome research2012 Dec2368-7522960374
Genetic risk factors for type 2 diabetes: a trans-regulatory genetic architecture?Elbein, Steven C; Gamazon, Eric R; Das, Swapan K; Rasouli, Neda; Kern, Philip A; Cox, Nancy JAmerican journal of human genetics2012 Sep 7466-7722958899
Mapping cis- and trans-regulatory effects across multiple tissues in twins.Grundberg, Elin; Small, Kerrin S; Hedman, Åsa K; Nica, Alexandra C; Buil, Alfonso; Keildson, Sarah; Bell, Jordana T; Yang, Tsun-Po; Meduri, Eshwar; Barrett, Amy; Nisbett, James; Sekowska, Magdalena; Wilk, Alicja; Shin, So-Youn; Glass, Daniel; Travers, Mary; Min, Josine L; Ring, Sue; Ho, Karen; Thorleifsson, Gudmar; Kong, Augustine; Thorsteindottir, Unnur; Ainali, Chrysanthi; Dimas, Antigone S; Hassanali, Neelam; Ingle, Catherine; Knowles, David; Krestyaninova, Maria; Lowe, Christopher E; Di Meglio, Paola; Montgomery, Stephen B; Parts, Leopold; Potter, Simon; Surdulescu, Gabriela; Tsaprouni, Loukia; Tsoka, Sophia; Bataille, Veronique; Durbin, Richard; Nestle, Frank O; O'Rahilly, Stephen; Soranzo, Nicole; Lindgren, Cecilia M; Zondervan, Krina T; Ahmadi, Kourosh R; Schadt, Eric E; Stefansson, Kari; Smith, George Davey; McCarthy, Mark I; Deloukas, Panos; Dermitzakis, Emmanouil T; Spector, Tim D; Multiple Tissue Human Expression Resource (MuTHER) ConsortiumNature genetics.2012 Oct;22941192
Quantile-based permutation thresholds for quantitative trait loci hotspots.Neto, Elias Chaibub; Keller, Mark P; Broman, Andrew F; Attie, Alan D; Jansen, Ritsert C; Broman, Karl W; Yandell, Brian SGenetics2012 Aug1355-6522661325
Reprioritizing genetic associations in hit regions using LASSO-based resample model averaging.Valdar, William; Sabourin, Jeremy; Nobel, Andrew; Holmes, Christopher CGenetic epidemiology2012 Jul451-6222549815
Matrix eQTL: ultra fast eQTL analysis via large matrix operations.Shabalin, Andrey ABioinformatics (Oxford, England)2012 May 151353-822492648
On sharing quantitative trait GWAS results in an era of multiple-omics data and the limits of genomic privacy.Im, Hae Kyung; Gamazon, Eric R; Nicolae, Dan L; Cox, Nancy JAmerican journal of human genetics2012 Apr 6591-822463877
Exon-specific QTLs skew the inferred distribution of expression QTLs detected using gene expression array data.Veyrieras, Jean-Baptiste; Gaffney, Daniel J; Pickrell, Joseph K; Gilad, Yoav; Stephens, Matthew; Pritchard, Jonathan KPloS one2012e3062922359548
DNaseýýýI sensitivity QTLs are a major determinant of human expression variation.Degner, Jacob F; Pai, Athma A; Pique-Regi, Roger; Veyrieras, Jean-Baptiste; Gaffney, Daniel J; Pickrell, Joseph K; De Leon, Sherryl; Michelini, Katelyn; Lewellen, Noah; Crawford, Gregory E; Stephens, Matthew; Gilad, Yoav; Pritchard, Jonathan KNature2012 Feb 16390-422307276
Computational tools for discovery and interpretation of expression quantitative trait loci.Wright, Fred A; Shabalin, Andrey A; Rusyn, IvanPharmacogenomics2012 Feb343-5222304583
Dissecting the regulatory architecture of gene expression QTLs.Gaffney, Daniel J; Veyrieras, Jean-Baptiste; Degner, Jacob F; Pique-Regi, Roger; Pai, Athma A; Crawford, Gregory E; Stephens, Matthew; Gilad, Yoav; Pritchard, Jonathan KGenome biology2012R722293038
Enrichment of cis-regulatory gene expression SNPs and methylation quantitative trait loci among bipolar disorder susceptibility variants.Gamazon, E R; Badner, J A; Cheng, L; Zhang, C; Zhang, D; Cox, N J; Gershon, E S; Kelsoe, J R; Greenwood, T A; Nievergelt, C M; Chen, C; McKinney, R; Shilling, P D; Schork, N J; Smith, E N; Bloss, C S; Nurnberger, J I; Edenberg, H J; Foroud, T; Koller, D LMolecular psychiatry2013 Mar340-622212596
seeQTL: a searchable database for human eQTLs.Xia, Kai; Shabalin, Andrey A; Huang, Shunping; Madar, Vered; Zhou, Yi-Hui; Wang, Wei; Zou, Fei; Sun, Wei; Sullivan, Patrick F; Wright, Fred ABioinformatics (Oxford, England)2012 Feb 1451-222171328
Estimation of alternative splicing variability in human populations.Gonzalez-Porta, Mar; Calvo, Miquel; Sammeth, Michael; Guigo, RodericGenome research2012 Mar528-3822113879
Rare and common regulatory variation in population-scale sequenced human genomes.Montgomery, Stephen B; Lappalainen, Tuuli; Gutierrez-Arcelus, Maria; Dermitzakis, Emmanouil TPLoS genetics2011 Jule100214421811411
Phosphorylation of Spo0A by the histidine kinase KinD requires the lipoprotein med in Bacillus subtilis.Banse, Allison V; Hobbs, Errett C; Losick, RichardJournal of bacteriology2011 Aug3949-5521622736
Copy number polymorphisms and anticancer pharmacogenomics.Gamazon, Eric R; Huang, R Stephanie; Dolan, M Eileen; Cox, Nancy JGenome biology2011R4621609475
Identification of an imprinted master trans regulator at the KLF14 locus related to multiple metabolic phenotypes.Small, Kerrin S; Hedman, Asa K; Grundberg, Elin; Nica, Alexandra C; Thorleifsson, Gudmar; Kong, Augustine; Thorsteindottir, Unnur; Shin, So-Youn; Richards, Hannah B; GIANT Consortium; MAGIC Investigators; DIAGRAM Consortium; Soranzo, Nicole; Ahmadi, Kourosh R; Lindgren, Cecilia M; Stefansson, Kari; Dermitzakis, Emmanouil T; Deloukas, Panos; Spector, Timothy D; McCarthy, Mark I; MuTHER ConsortiumNature genetics2011 Jun561-421572415
A study of CNVs as trait-associated polymorphisms and as expression quantitative trait loci.Gamazon, Eric R; Nicolae, Dan L; Cox, Nancy JPLoS genetics2011e100129221304891
DiNAMIC: a method to identify recurrent DNA copy number aberrations in tumors.Walter, Vonn; Nobel, Andrew B; Wright, Fred ABioinformatics (Oxford, England)2011 Mar 1678-8521183584
Heading down the wrong pathway: on the influence of correlation within gene sets.Gatti, Daniel M; Barry, William T; Nobel, Andrew B; Rusyn, Ivan; Wright, Fred ABMC genomics201057420955544
Toxicogenetics: population-based testing of drug and chemical safety in mouse models.Rusyn, Ivan; Gatti, Daniel M; Wiltshire, Timothy; Wilshire, Timothy; Kleeberger, Steven R; Threadgill, David WPharmacogenomics2010 Aug1127-3620704464