Publications Search by Program
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The search results on this publication page are automated on a monthly schedule based on acknowledgement of NIH Common Fund award numbers and intramural awards. Therefore, this list is not an exhaustive or error-free account of the program’s publications.
4D Nucleome (560)
| Publication Title | Authors | Journal | Publication Date | Page No | PubMedID |
|---|---|---|---|---|---|
| HiC-ACT: improved detection of chromatin interactions from Hi-C data via aggregated Cauchy test. | Lagler, Taylor M; Abnousi, Armen; Hu, Ming; Yang, Yuchen; Li, Yun | American journal of human genetics | 2021 02 04 | 33545029 | |
| SARS-CoV-2 infection in pregnancy is associated with robust inflammatory response at the maternal-fetal interface. | Lu-Culligan, Alice; Chavan, Arun R; Vijayakumar, Pavithra; Irshaid, Lina; Courchaine, Edward M; Milano, Kristin M; Tang, Zhonghua; Pope, Scott D; Song, Eric; Vogels, Chantal B F; Lu-Culligan, William J; Campbell, Katherine H; Casanovas-Massana, Arnau; Ber | medRxiv : the preprint server for health sciences | 2021 Jan 26 | 33532791 | |
| Integrated spatial genomics reveals global architecture of single nuclei. | Takei, Yodai; Yun, Jina; Zheng, Shiwei; Ollikainen, Noah; Pierson, Nico; White, Jonathan; Shah, Sheel; Thomassie, Julian; Suo, Shengbao; Eng, Chee-Huat Linus; Guttman, Mitchell; Yuan, Guo-Cheng; Cai, Long | Nature | 2021 02 | 33505024 | |
| TALEN outperforms Cas9 in editing heterochromatin target sites. | Jain, Surbhi; Shukla, Saurabh; Yang, Che; Zhang, Meng; Fatma, Zia; Lingamaneni, Manasi; Abesteh, Shireen; Lane, Stephan Thomas; Xiong, Xiong; Wang, Yuchuan; Schroeder, Charles M; Selvin, Paul R; Zhao, Huimin | Nature communications | 2021 01 27 | 33504770 | |
| SPIN reveals genome-wide landscape of nuclear compartmentalization. | Wang, Yuchuan; Zhang, Yang; Zhang, Ruochi; van Schaik, Tom; Zhang, Liguo; Sasaki, Takayo; Peric-Hupkes, Daniel; Chen, Yu; Gilbert, David M; van Steensel, Bas; Belmont, Andrew S; Ma, Jian | Genome biology | 2021 Jan 14 | 33446254 | |
| CRISPR technologies for precise epigenome editing. | Nakamura, Muneaki; Gao, Yuchen; Dominguez, Antonia A; Qi, Lei S | Nature cell biology | 2021 Jan | 33420494 | |
| Hyperosmotic stress alters the RNA polymerase II interactome and induces readthrough transcription despite widespread transcriptional repression. | Rosa-Mercado, Nicolle A; Zimmer, Joshua T; Apostolidi, Maria; Rinehart, Jesse; Simon, Matthew D; Steitz, Joan A | Molecular cell | 2021 02 04 | 33400923 | |
| Genetic screening for single-cell variability modulators driving therapy resistance. | Torre, Eduardo A; Arai, Eri; Bayatpour, Sareh; Jiang, Connie L; Beck, Lauren E; Emert, Benjamin L; Shaffer, Sydney M; Mellis, Ian A; Fane, Mitchell E; Alicea, Gretchen M; Budinich, Krista A; Weeraratna, Ashani T; Shi, Junwei; Raj, Arjun | Nature genetics | 2021 01 | 33398196 | |
| Promoter-proximal CTCF binding promotes distal enhancer-dependent gene activation. | Kubo, Naoki; Ishii, Haruhiko; Xiong, Xiong; Bianco, Simona; Meitinger, Franz; Hu, Rong; Hocker, James D; Conte, Mattia; Gorkin, David; Yu, Miao; Li, Bin; Dixon, Jesse R; Hu, Ming; Nicodemi, Mario; Zhao, Huimin; Ren, Bing | Nature structural & molecular biology | 2021 Feb | 33398174 | |
| TSA-seq reveals a largely conserved genome organization relative to nuclear speckles with small position changes tightly correlated with gene expression changes. | Zhang, Liguo; Zhang, Yang; Chen, Yu; Gholamalamdari, Omid; Wang, Yuchuan; Ma, Jian; Belmont, Andrew S | Genome research | 2020 Dec 18 | 33355299 | |
| Transcript assembly improves expression quantification of transposable elements in single-cell RNA-seq data. | Shao, Wanqing; Wang, Ting | Genome research | 2021 Jan | 33355230 | |
| ProbeDealer is a convenient tool for designing probes for highly multiplexed fluorescence in situ hybridization. | Hu, Mengwei; Yang, Bing; Cheng, Yubao; Radda, Jonathan S D; Chen, Yanbo; Liu, Miao; Wang, Siyuan | Scientific reports | 2020 12 16 | 33328483 | |
| Close to the edge: Heterochromatin at the nucleolar and nuclear peripheries. | Bizhanova, Aizhan; Kaufman, Paul D | Biochimica et biophysica acta. Gene regulatory mechanisms. | 2020 Dec 08; | 33307247 | |
| Epigenomic differences in the human and chimpanzee genomes are associated with structural variation. | Zhuo, Xiaoyu; Du, Alan Y; Pehrsson, Erica C; Li, Daofeng; Wang, Ting | Genome research | 2020 Dec 10 | 33303495 | |
| The Smc5/6 Core Complex Is a Structure-Specific DNA Binding and Compacting Machine. | Serrano, Diego; Cordero, Gustavo; Kawamura, Ryo; Sverzhinsky, Aleksandr; Sarker, Muzaddid; Roy, Shamayita; Malo, Catherine; Pascal, John M; Marko, John F; D'Amours, Damien | Molecular cell | 2020 12 17 | 33301731 | |
| Gene regulation gravitates toward either addition or multiplication when combining the effects of two signals. | Sanford, Eric M; Emert, Benjamin L; Coté, Allison; Raj, Arjun | eLife | 2020 12 07 | 33284110 | |
| Trans- and cis-acting effects of Firre on epigenetic features of the inactive X chromosome. | Fang, He; Bonora, Giancarlo; Lewandowski, Jordan P; Thakur, Jitendra; Filippova, Galina N; Henikoff, Steven; Shendure, Jay; Duan, Zhijun; Rinn, John L; Deng, Xinxian; Noble, William S; Disteche, Christine M | Nature communications | 2020 11 27 | 33247132 | |
| A map of cis-regulatory elements and 3D genome structures in zebrafish. | Yang, Hongbo; Luan, Yu; Liu, Tingting; Lee, Hyung Joo; Fang, Li; Wang, Yanli; Wang, Xiaotao; Zhang, Bo; Jin, Qiushi; Ang, Khai Chung; Xing, Xiaoyun; Wang, Juan; Xu, Jie; Song, Fan; Sriranga, Iyyanki; Khunsriraksakul, Chachrit; Salameh, Tarik; Li, Daofeng; | Nature. | 2020 Dec; | 33239788 | |
| Requisite Chromatin Remodeling for Myeloid and Erythroid Lineage Differentiation from Erythromyeloid Progenitors. | Wu, Jun; Krchma, Karen; Lee, Hyung Joo; Prabhakar, Sairam; Wang, Xiaoli; Zhao, Haiyong; Xing, Xiaoyun; Seong, Rho H; Fremont, Daved H; Artyomov, Maxim N; Wang, Ting; Choi, Kyunghee | Cell reports. | 2020 Nov 17; | 33207205 | |
| Strong intracellular signal inactivation produces sharper and more robust signaling from cell membrane to nucleus. | Ma, Jingwei; Do, Myan; Le Gros, Mark A; Peskin, Charles S; Larabell, Carolyn A; Mori, Yoichiro; Isaacson, Samuel A | PLoS computational biology | 2020 11 | 33196636 | |
| SARS-CoV-2 Disrupts Splicing, Translation, and Protein Trafficking to Suppress Host Defenses. | Banerjee, Abhik K; Blanco, Mario R; Bruce, Emily A; Honson, Drew D; Chen, Linlin M; Chow, Amy; Bhat, Prashant; Ollikainen, Noah; Quinodoz, Sofia A; Loney, Colin; Thai, Jasmine; Miller, Zachary D; Lin, Aaron E; Schmidt, Madaline M; Stewart, Douglas G; Gold | Cell. | 2020 11 25; | 33080218 | |
| Stress-induced RNA-chromatin interactions promote endothelial dysfunction. | Calandrelli, Riccardo; Xu, Lixia; Luo, Yingjun; Wu, Weixin; Fan, Xiaochen; Nguyen, Tri; Chen, Chien-Ju; Sriram, Kiran; Tang, Xiaofang; Burns, Andrew B; Natarajan, Rama; Chen, Zhen Bouman; Zhong, Sheng | Nature communications. | 2020 10 15; | 33060583 | |
| EMU: reconfigurable graphical user interfaces for Micro-Manager. | Deschamps, Joran; Ries, Jonas | BMC bioinformatics. | 2020 Oct 15; | 33059591 | |
| Cell-type-specific 3D epigenomes in the developing human cortex. | Song, Michael; Pebworth, Mark-Phillip; Yang, Xiaoyu; Abnousi, Armen; Fan, Changxu; Wen, Jia; Rosen, Jonathan D; Choudhary, Mayank N K; Cui, Xiekui; Jones, Ian R; Bergenholtz, Seth; Eze, Ugomma C; Juric, Ivan; Li, Bingkun; Maliskova, Lenka; Lee, Jerry; Liu | Nature. | 2020 Oct 14; | 33057195 | |
| Exploring chromosomal structural heterogeneity across multiple cell lines. | Cheng, Ryan R; Contessoto, Vinicius G; Lieberman Aiden, Erez; Wolynes, Peter G; Di Pierro, Michele; Onuchic, Jose N | eLife. | 2020 Oct 13; | 33047670 | |
| Coarse-grained modelling of DNA plectoneme pinning in the presence of base-pair mismatches. | Desai, Parth Rakesh; Brahmachari, Sumitabha; Marko, John F; Das, Siddhartha; Neuman, Keir C | Nucleic acids research. | 2020 11 04; | 33045724 | |
| Micromanipulation of prophase I chromosomes from mouse spermatocytes reveals high stiffness and gel-like chromatin organization. | Biggs, Ronald J; Liu, Ning; Peng, Yiheng; Marko, John F; Qiao, Huanyu | Communications biology. | 2020 Sep 30; | 32999386 | |
| High-Resolution Mapping of Multiway Enhancer-Promoter Interactions Regulating Pathogen Detection. | Vangala, Pranitha; Murphy, Rachel; Quinodoz, Sofia A; Gellatly, Kyle; McDonel, Patrick; Guttman, Mitchell; Garber, Manuel | Molecular cell. | 2020 10 15; | 32991830 | |
| TWO-SIGMA: A novel two-component single cell model-based association method for single-cell RNA-seq data. | Van Buren, Eric; Hu, Ming; Weng, Chen; Jin, Fulai; Li, Yan; Wu, Di; Li, Yun | Genetic epidemiology. | 2020 Sep 29; | 32989764 | |
| Tissue-specific usage of transposable element-derived promoters in mouse development. | Miao, Benpeng; Fu, Shuhua; Lyu, Cheng; Gontarz, Paul; Wang, Ting; Zhang, Bo | Genome biology. | 2020 Sep 28; | 32988383 | |
| Many functionally connected loci foster adaptive diversification along a neotropical hybrid zone. | Lewis, James J; Van Belleghem, Steven M; Papa, Riccardo; Danko, Charles G; Reed, Robert D | Science advances. | 2020 Sep; | 32978147 | |
| Capturing cell type-specific chromatin compartment patterns by applying topic modeling to single-cell Hi-C data. | Kim, Hyeon-Jin; Yard?mc?, Galip Gürkan; Bonora, Giancarlo; Ramani, Vijay; Liu, Jie; Qiu, Ruolan; Lee, Choli; Hesson, Jennifer; Ware, Carol B; Shendure, Jay; Duan, Zhijun; Noble, William Stafford | PLoS computational biology. | 2020 09; | 32946435 | |
| The qBED track: a novel genome browser visualization for point processes. | Moudgil, Arnav; Li, Daofeng; Hsu, Silas; Purushotham, Deepak; Wang, Ting; Mitra, Robi D | Bioinformatics (Oxford, England). | 2020 Sep 17; | 32941613 | |
| DeepH&M: Estimating single-CpG hydroxymethylation and methylation levels from enrichment and restriction enzyme sequencing methods. | He, Yu; Jang, Hyo Sik; Xing, Xiaoyun; Li, Daofeng; Vasek, Michael J; Dougherty, Joseph D; Wang, Ting | Science advances. | 2020 Jul; | 32937429 | |
| Multi-contact 3C reveals that the human genome during interphase is largely not entangled. | Tavares-Cadete, Filipe; Norouzi, Davood; Dekker, Bastiaan; Liu, Yu; Dekker, Job | Nature structural & molecular biology. | 2020 Sep 14; | 32929283 | |
| Nucleated transcriptional condensates amplify gene expression. | Wei, Ming-Tzo; Chang, Yi-Che; Shimobayashi, Shunsuke F; Shin, Yongdae; Strom, Amy R; Brangwynne, Clifford P | Nature cell biology. | 2020 Oct; | 32929202 | |
| NuSeT: A deep learning tool for reliably separating and analyzing crowded cells. | Yang, Linfeng; Ghosh, Rajarshi P; Franklin, J Matthew; Chen, Simon; You, Chenyu; Narayan, Raja R; Melcher, Marc L; Liphardt, Jan T | PLoS computational biology. | 2020 09; | 32925919 | |
| Concerted localization-resets precede YAP-dependent transcription. | Franklin, J Matthew; Ghosh, Rajarshi P; Shi, Quanming; Reddick, Michael P; Liphardt, Jan T | Nature communications. | 2020 09 11; | 32917893 | |
| Exploring the coronavirus pandemic with the WashU Virus Genome Browser. | Flynn, Jennifer A; Purushotham, Deepak; Choudhary, Mayank N K; Zhuo, Xiaoyu; Fan, Changxu; Matt, Gavriel; Li, Daofeng; Wang, Ting | Nature genetics. | 2020 10; | 32908257 | |
| Cell cycle dynamics of lamina-associated DNA. | van Schaik, Tom; Vos, Mabel; Peric-Hupkes, Daan; Hn Celie, Patrick; van Steensel, Bas | EMBO reports. | 2020 Nov 05; | 32893442 | |
| Alteration of genome folding via contact domain boundary insertion. | Zhang, Di; Huang, Peng; Sharma, Malini; Keller, Cheryl A; Giardine, Belinda; Zhang, Haoyue; Gilgenast, Thomas G; Phillips-Cremins, Jennifer E; Hardison, Ross C; Blobel, Gerd A | Nature genetics. | 2020 Aug 31; | 32868908 | |
| 3DeFDR: statistical methods for identifying cell type-specific looping interactions in 5C and Hi-C data. | Fernandez, Lindsey R; Gilgenast, Thomas G; Phillips-Cremins, Jennifer E | Genome biology. | 2020 Aug 28; | 32859248 | |
| Cellular diversity of the regenerating caudal fin. | Hou, Yiran; Lee, Hyung Joo; Chen, Yujie; Ge, Jiaxin; Osman, Fujr Osman Ibrahim; McAdow, Anthony R; Mokalled, Mayssa H; Johnson, Stephen L; Zhao, Guoyan; Wang, Ting | Science advances. | 2020 Aug; | 32851162 | |
| Two-Color Imaging of Nonrepetitive Endogenous Loci in Human Cells. | Tasan, Ipek; Su, Christina Jean; Enghiad, Behnam; Zhang, Meng; Mishra, Shekhar; Zhao, Huimin | ACS synthetic biology. | 2020 09 18; | 32822529 | |
| Targeted DNase Hi-C. | Duan, Zhijun | Methods in molecular biology (Clifton, N.J.). | 2021; | 32820399 | |
| Single-molecule diffusometry reveals no catalysis-induced diffusion enhancement of alkaline phosphatase as proposed by FCS experiments. | Chen, Zhijie; Shaw, Alan; Wilson, Hugh; Woringer, Maxime; Darzacq, Xavier; Marqusee, Susan; Wang, Quan; Bustamante, Carlos | Proceedings of the National Academy of Sciences of the United States of America. | 2020 Sep 01; | 32817484 | |
| Optimizing imaging speed and excitation intensity for single-molecule localization microscopy. | Diekmann, Robin; Kahnwald, Maurice; Schoenit, Andreas; Deschamps, Joran; Matti, Ulf; Ries, Jonas | Nature methods. | 2020 Sep; | 32807954 | |
| Memory Sequencing Reveals Heritable Single-Cell Gene Expression Programs Associated with Distinct Cellular Behaviors. | Shaffer, Sydney M; Emert, Benjamin L; Reyes Hueros, Raúl A; Cote, Christopher; Harmange, Guillaume; Schaff, Dylan L; Sizemore, Ann E; Gupte, Rohit; Torre, Eduardo; Singh, Abhyudai; Bassett, Danielle S; Raj, Arjun | Cell. | 2020 Aug 20; | 32735851 | |
| An integrative ENCODE resource for cancer genomics. | Zhang, Jing; Lee, Donghoon; Dhiman, Vineet; Jiang, Peng; Xu, Jie; McGillivray, Patrick; Yang, Hongbo; Liu, Jason; Meyerson, William; Clarke, Declan; Gu, Mengting; Li, Shantao; Lou, Shaoke; Xu, Jinrui; Lochovsky, Lucas; Ung, Matthew; Ma, Lijia; Yu, Shan; C | Nature communications. | 2020 07 29; | 32728046 | |
| MS2-TRIBE Evaluates Both Protein-RNA Interactions and Nuclear Organization of Transcription by RNA Editing. | Biswas, Jeetayu; Rahman, Reazur; Gupta, Varun; Rosbash, Michael; Singer, Robert H | iScience. | 2020 Jul 24; | 32674054 | |
| A supervised learning framework for chromatin loop detection in genome-wide contact maps. | Salameh, Tarik J; Wang, Xiaotao; Song, Fan; Zhang, Bo; Wright, Sage M; Khunsriraksakul, Chachrit; Ruan, Yijun; Yue, Feng | Nature communications. | 2020 Jul 09; | 32647330 | |
| Free energy-based model of CTCF-mediated chromatin looping in the human genome. | Dawson, Wayne K; Lazniewski, Michal; Plewczynski, Dariusz | Methods (San Diego, Calif.). | 2020 10 01; | 32645447 | |
| Polymer physics indicates chromatin folding variability across single-cells results from state degeneracy in phase separation. | Conte, Mattia; Fiorillo, Luca; Bianco, Simona; Chiariello, Andrea M; Esposito, Andrea; Nicodemi, Mario | Nature communications. | 2020 07 03; | 32620890 | |
| Epigenomics and genotype-phenotype association analyses reveal conserved genetic architecture of complex traits in cattle and human. | Liu, Shuli; Yu, Ying; Zhang, Shengli; Cole, John B; Tenesa, Albert; Wang, Ting; McDaneld, Tara G; Ma, Li; Liu, George E; Fang, Lingzhao | BMC biology. | 2020 Jul 03; | 32620158 | |
| A Rainbow Reporter Tracks Single Cells and Reveals Heterogeneous Cellular Dynamics among Pluripotent Stem Cells and Their Differentiated Derivatives. | El-Nachef, Danny; Shi, Kevin; Beussman, Kevin M; Martinez, Refugio; Regier, Mary C; Everett, Guy W; Murry, Charles E; Stevens, Kelly R; Young, Jessica E; Sniadecki, Nathan J; Davis, Jennifer | Stem cell reports. | 2020 07 14; | 32619493 | |
| The Histone Chaperone FACT Induces Cas9 Multi-turnover Behavior and Modifies Genome Manipulation in Human Cells. | Wang, Alan S; Chen, Leo C; Wu, R Alex; Hao, Yvonne; McSwiggen, David T; Heckert, Alec B; Richardson, Christopher D; Gowen, Benjamin G; Kazane, Katelynn R; Vu, Jonathan T; Wyman, Stacia K; Shin, Jiyung J; Darzacq, Xavier; Walter, Johannes C; Corn, Jacob E | Molecular cell. | 2020 07 16; | 32603710 | |
| Robust principal component analysis for accurate outlier sample detection in RNA-Seq data. | Chen, Xiaoying; Zhang, Bo; Wang, Ting; Bonni, Azad; Zhao, Guoyan | BMC bioinformatics. | 2020 Jun 29; | 32600248 | |
| Single-molecule imaging of transcription dynamics in somatic stem cells. | Wheat, Justin C; Sella, Yehonatan; Willcockson, Michael; Skoultchi, Arthur I; Bergman, Aviv; Singer, Robert H; Steidl, Ulrich | Nature. | 2020 07; | 32581360 | |
| Comparison of differential accessibility analysis strategies for ATAC-seq data. | Gontarz, Paul; Fu, Shuhua; Xing, Xiaoyun; Liu, Shaopeng; Miao, Benpeng; Bazylianska, Viktoriia; Sharma, Akhil; Madden, Pamela; Cates, Kitra; Yoo, Andrew; Moszczynska, Anna; Wang, Ting; Zhang, Bo | Scientific reports. | 2020 Jun 23; | 32576878 | |
| Long Noncoding RNAs: Molecular Modalities to Organismal Functions. | Rinn, John L; Chang, Howard Y | Annual review of biochemistry. | 2020 06 20; | 32569523 | |
| MATCHA: Probing multi-way chromatin interaction with hypergraph representation learning. | Zhang, Ruochi; Ma, Jian | Cell systems. | 2020 May 20; | 32550271 | |
| Xist drives spatial compartmentalization of DNA and protein to orchestrate initiation and maintenance of X inactivation. | Strehle, Mackenzie; Guttman, Mitchell | Current opinion in cell biology. | 2020 06; | 32535328 | |
| Loop extrusion: theory meets single-molecule experiments. | Banigan, Edward J; Mirny, Leonid A | Current opinion in cell biology. | 2020 06; | 32534241 | |
| Global analysis of histone modifications and long-range chromatin interactions revealed the differential cistrome changes and novel transcriptional players in human dilated cardiomyopathy. | Liu, Chia-Feng; Abnousi, Armen; Bazeley, Peter; Ni, Ying; Morley, Michael; Moravec, Christine S; Hu, Ming; Tang, W H Wilson | Journal of molecular and cellular cardiology | 2020 08 | 32533974 | |
| Biosystems Design by Machine Learning. | Volk, Michael Jeffrey; Lourentzou, Ismini; Mishra, Shekhar; Vo, Lam Tung; Zhai, Chengxiang; Zhao, Huimin | ACS synthetic biology. | 2020 07 17; | 32485108 | |
| Evolving methodologies and concepts in 4D nucleome research. | Sparks, Thomas M; Harabula, Izabela; Pombo, Ana | Current opinion in cell biology. | 2020 May 27; | 32473574 | |
| Three-dimensional genome restructuring across timescales of activity-induced neuronal gene expression. | Beagan, Jonathan A; Pastuzyn, Elissa D; Fernandez, Lindsey R; Guo, Michael H; Feng, Kelly; Titus, Katelyn R; Chandrashekar, Harshini; Shepherd, Jason D; Phillips-Cremins, Jennifer E | Nature neuroscience. | 2020 06; | 32451484 | |
| 3D-GNOME 2.0: a three-dimensional genome modeling engine for predicting structural variation-driven alterations of chromatin spatial structure in the human genome. | Wlasnowolski, Michal; Sadowski, Michal; Czarnota, Tymon; Jodkowska, Karolina; Szalaj, Przemyslaw; Tang, Zhonghui; Ruan, Yijun; Plewczynski, Dariusz | Nucleic acids research. | 2020 07 02; | 32442297 | |
| Delta-1 Functionalized Hydrogel Promotes hESC-Cardiomyocyte Graft Proliferation and Maintains Heart Function Post-Injury. | Gerbin, Kaytlyn A; Mitzelfelt, Katie A; Guan, Xuan; Martinson, Amy M; Murry, Charles E | Molecular therapy. Methods & clinical development. | 2020 Jun 12; | 32426414 | |
| Composition-dependent thermodynamics of intracellular phase separation. | Riback, Joshua A; Zhu, Lian; Ferrolino, Mylene C; Tolbert, Michele; Mitrea, Diana M; Sanders, David W; Wei, Ming-Tzo; Kriwacki, Richard W; Brangwynne, Clifford P | Nature. | 2020 05; | 32405004 | |
| Large DNA Methylation Nadirs Anchor Chromatin Loops Maintaining Hematopoietic Stem Cell Identity. | Zhang, Xiaotian; Jeong, Mira; Huang, Xingfan; Wang, Xue Qing; Wang, Xinyu; Zhou, Wanding; Shamim, Muhammad S; Gore, Haley; Himadewi, Pamela; Liu, Yushuai; Bochkov, Ivan D; Reyes, Jaime; Doty, Madison; Huang, Yung-Hsin; Jung, Haiyoung; Heikamp, Emily; Aide | Molecular cell. | 2020 05 07; | 32386543 | |
| Ultrastructural visualization of 3D chromatin folding using volume electron microscopy and DNA in situ hybridization. | Trzaskoma, Pawe?; Ruszczycki, B?a?ej; Lee, Byoungkoo; Pels, Katarzyna K; Krawczyk, Katarzyna; Bokota, Grzegorz; Szczepankiewicz, Andrzej A; Aaron, Jesse; Walczak, Agnieszka; ?liwi?ska, Ma?gorzata A; Magalska, Adriana; Kadlof, Michal; Wolny, Artur; Parteka | Nature communications. | 2020 05 01; | 32358536 | |
| The gene-rich genome of the scallop Pecten maximus. | Kenny, Nathan J; McCarthy, Shane A; Dudchenko, Olga; James, Katherine; Betteridge, Emma; Corton, Craig; Dolucan, Jale; Mead, Dan; Oliver, Karen; Omer, Arina D; Pelan, Sarah; Ryan, Yan; Sims, Ying; Skelton, Jason; Smith, Michelle; Torrance, James; Weisz, D | GigaScience | 2020 05 01 | 32352532 | |
| Gene Networks with Transcriptional Bursting Recapitulate Rare Transient Coordinated High Expression States in Cancer. | Schuh, Lea; Saint-Antoine, Michael; Sanford, Eric M; Emert, Benjamin L; Singh, Abhyudai; Marr, Carsten; Raj, Arjun; Goyal, Yogesh | Cell systems. | 2020 Apr 22; | 32325034 | |
| Chromatin Viscoelasticity Measured by Local Dynamic Analysis. | Vivante, Anat; Bronshtein, Irena; Garini, Yuval | Biophysical journal. | 2020 05 05; | 32320676 | |
| Competing Protein-RNA Interaction Networks Control Multiphase Intracellular Organization. | Sanders, David W; Kedersha, Nancy; Lee, Daniel S W; Strom, Amy R; Drake, Victoria; Riback, Joshua A; Bracha, Dan; Eeftens, Jorine M; Iwanicki, Allana; Wang, Alicia; Wei, Ming-Tzo; Whitney, Gena; Lyons, Shawn M; Anderson, Paul; Jacobs, William M; Ivanov, P | Cell. | 2020 04 16; | 32302570 | |
| Chromosome organization by one-sided and two-sided loop extrusion. | Banigan, Edward J; van den Berg, Aafke A; Brandão, Hugo B; Marko, John F; Mirny, Leonid A | eLife | 2020 04 06 | 32250245 | |
| Canfam_GSD: De novo chromosome-length genome assembly of the German Shepherd Dog (Canis lupus familiaris) using a combination of long reads, optical mapping, and Hi-C. | Field, Matt A; Rosen, Benjamin D; Dudchenko, Olga; Chan, Eva K F; Minoche, Andre E; Edwards, Richard J; Barton, Kirston; Lyons, Ruth J; Tuipulotu, Daniel Enosi; Hayes, Vanessa M; D Omer, Arina; Colaric, Zane; Keilwagen, Jens; Skvortsova, Ksenia; Bogdanovi | GigaScience. | 2020 04 01; | 32236524 | |
| Avocado: a multi-scale deep tensor factorization method learns a latent representation of the human epigenome. | Schreiber, Jacob; Durham, Timothy; Bilmes, Jeffrey; Noble, William Stafford | Genome biology. | 2020 03 30; | 32228704 | |
| Distinct features of nucleolus-associated domains in mouse embryonic stem cells. | Bizhanova, Aizhan; Yan, Aimin; Yu, Jun; Zhu, Lihua Julie; Kaufman, Paul D | Chromosoma. | 2020 Mar 26; | 32219510 | |
| Efficient and Reproducible Multigene Expression after Single-Step Transfection Using Improved BAC Transgenesis and Engineering Toolkit. | Zhao, Binhui; Chaturvedi, Pankaj; Zimmerman, David L; Belmont, Andrew S | ACS synthetic biology. | 2020 05 15; | 32216371 | |
| Ultrastructural Details of Mammalian Chromosome Architecture. | Krietenstein, Nils; Abraham, Sameer; Venev, Sergey V; Abdennur, Nezar; Gibcus, Johan; Hsieh, Tsung-Han S; Parsi, Krishna Mohan; Yang, Liyan; Maehr, René; Mirny, Leonid A; Dekker, Job; Rando, Oliver J | Molecular cell. | 2020 Mar 14; | 32213324 | |
| Resolving the 3D Landscape of Transcription-Linked Mammalian Chromatin Folding. | Hsieh, Tsung-Han S; Cattoglio, Claudia; Slobodyanyuk, Elena; Hansen, Anders S; Rando, Oliver J; Tjian, Robert; Darzacq, Xavier | Molecular cell. | 2020 05 07; | 32213323 | |
| High-resolution Repli-Seq defines the temporal choreography of initiation, elongation and termination of replication in mammalian cells. | Zhao, Peiyao A; Sasaki, Takayo; Gilbert, David M | Genome biology. | 2020 03 24; | 32209126 | |
| Cost-efficient open source laser engine for microscopy. | Schröder, Daniel; Deschamps, Joran; Dasgupta, Anindita; Matti, Ulf; Ries, Jonas | Biomedical optics express. | 2020 Feb 01; | 32206389 | |
| Evaluating Enhancer Function and Transcription. | Field, Andrew; Adelman, Karen | Annual review of biochemistry. | 2020 06 20; | 32197056 | |
| Imaging of DNA and RNA in Living Eukaryotic Cells to Reveal Spatiotemporal Dynamics of Gene Expression. | Sato, Hanae; Das, Sulagna; Singer, Robert H; Vera, Maria | Annual review of biochemistry. | 2020 06 20; | 32176523 | |
| The Mixture of Autoregressive Hidden Markov Models of Morphology for Dentritic Spines During Activation Process. | Urban, Paulina; Rezaei Tabar, Vahid; Denkiewicz, Michał; Bokota, Grzegorz; Das, Nirmal; Basu, Subhadip; Plewczynski, Dariusz | Journal of computational biology : a journal of computational molecular cell biology | 2020 09 | 32175768 | |
| Advanced 3D Analysis and Optimization of Single-Molecule FISH in Drosophila Muscle. | Noma, Akiko; Smith, Carlas S; Huisman, Maximiliaan; Martin, Robert M; Moore, Melissa J; Grunwald, David | Small methods. | 2018 Sep 11; | 32158910 | |
| Attractor Ranked Radial Basis Function Network: A Nonparametric Forecasting Approach for Chaotic Dynamic Systems. | Masnadi-Shirazi, Maryam; Subramaniam, Shankar | Scientific reports. | 2020 Mar 02; | 32123218 | |
| Regenerating zebrafish fin epigenome is characterized by stable lineage-specific DNA methylation and dynamic chromatin accessibility. | Lee, Hyung Joo; Hou, Yiran; Chen, Yujie; Dailey, Zea Z; Riddihough, Aiyana; Jang, Hyo Sik; Wang, Ting; Johnson, Stephen L | Genome biology. | 2020 02 27; | 32106888 | |
| Chromatin interaction analyses elucidate the roles of PRC2-bound silencers in mouse development. | Ngan, Chew Yee; Wong, Chee Hong; Tjong, Harianto; Wang, Wenbo; Goldfeder, Rachel L; Choi, Cindy; He, Hao; Gong, Liang; Lin, Junyan; Urban, Barbara; Chow, Julianna; Li, Meihong; Lim, Joanne; Philip, Vivek; Murray, Stephen A; Wang, Haoyi; Wei, Chia-Lin | Nature genetics. | 2020 03; | 32094912 | |
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| Spatial Genome Re-organization between Fetal and Adult Hematopoietic Stem Cells. | Chen, Changya; Yu, Wenbao; Tober, Joanna; Gao, Peng; He, Bing; Lee, Kiwon; Trieu, Tuan; Blobel, Gerd A; Speck, Nancy A; Tan, Kai | Cell reports. | 2019 12 17; | 31851943 | |
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| Chromatin Is Frequently Unknotted at the Megabase Scale. | Goundaroulis, Dimos; Lieberman Aiden, Erez; Stasiak, Andrzej | Biophysical journal. | 2020 May 05; | 31818464 | |
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| Activity-by-contact model of enhancer-promoter regulation from thousands of CRISPR perturbations. | Fulco, Charles P; Nasser, Joseph; Jones, Thouis R; Munson, Glen; Bergman, Drew T; Subramanian, Vidya; Grossman, Sharon R; Anyoha, Rockwell; Doughty, Benjamin R; Patwardhan, Tejal A; Nguyen, Tung H; Kane, Michael; Perez, Elizabeth M; Durand, Neva C; Lareau | Nature genetics. | 2019 12; | 31784727 | |
| Chromatin structure dynamics during the mitosis-to-G1 phase transition. | Zhang, Haoyue; Emerson, Daniel J; Gilgenast, Thomas G; Titus, Katelyn R; Lan, Yemin; Huang, Peng; Zhang, Di; Wang, Hongxin; Keller, Cheryl A; Giardine, Belinda; Hardison, Ross C; Phillips-Cremins, Jennifer E; Blobel, Gerd A | Nature. | 2019 12; | 31776509 | |
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| Chromosome disentanglement driven via optimal compaction of loop-extruded brush structures. | Brahmachari, Sumitabha; Marko, John F | Proceedings of the National Academy of Sciences of the United States of America. | 2019 12 10; | 31757850 | |
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| The liquid nucleome - phase transitions in the nucleus at a glance. | Strom, Amy R; Brangwynne, Clifford P | Journal of cell science. | 2019 11 21; | 31754043 | |
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| A Proteomic Perspective on Cardiomyocyte Maturation. | Muraoka, Naoto; Sun, Bingyun; Murry, Charles E | Circulation research. | 2019 11 08; | 31697629 | |
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| Photoactivation of silicon rhodamines via a light-induced protonation. | Frei, Michelle S; Hoess, Philipp; Lampe, Marko; Nijmeijer, Bianca; Kueblbeck, Moritz; Ellenberg, Jan; Wadepohl, Hubert; Ries, Jonas; Pitsch, Stefan; Reymond, Luc; Johnsson, Kai | Nature communications. | 2019 Oct 08; | 31594948 | |
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| Cronos Titin Is Expressed in Human Cardiomyocytes and Necessary for Normal Sarcomere Function. | Zaunbrecher, Rebecca J; Abel, Ashley N; Beussman, Kevin; Leonard, Andrea; von Frieling-Salewsky, Marion; Fields, Paul A; Pabon, Lil; Reinecke, Hans; Yang, Xiulan; Macadangdang, Jesse; Kim, Deok-Ho; Linke, Wolfgang A; Sniadecki, Nathan J; Regnier, Michael; Murry, Charles E | Circulation. | 2019 Nov 12; | 31587567 | |
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| The genome-wide multi-layered architecture of chromosome pairing in early Drosophila embryos. | Erceg, Jelena; AlHaj Abed, Jumana; Goloborodko, Anton; Lajoie, Bryan R; Fudenberg, Geoffrey; Abdennur, Nezar; Imakaev, Maxim; McCole, Ruth B; Nguyen, Son C; Saylor, Wren; Joyce, Eric F; Senaratne, T Niroshini; Hannan, Mohammed A; Nir, Guy; Dekker, Job; Mirny, Leonid A; Wu, C-Ting | Nature communications. | 2019 Oct 03; | 31582744 | |
| Rational Design of Fluorogenic and Spontaneously Blinking Labels for Super-Resolution Imaging. | Zheng, Qinsi; Ayala, Anthony X; Chung, Inhee; Weigel, Aubrey V; Ranjan, Anand; Falco, Natalie; Grimm, Jonathan B; Tkachuk, Ariana N; Wu, Carl; Lippincott-Schwartz, Jennifer; Singer, Robert H; Lavis, Luke D | ACS central science. | 2019 Sep 25; | 31572787 | |
| Fatty Acids Enhance the Maturation of Cardiomyocytes Derived from Human Pluripotent Stem Cells. | Yang, Xiulan; Rodriguez, Marita L; Leonard, Andrea; Sun, Lihua; Fischer, Karin A; Wang, Yuliang; Ritterhoff, Julia; Zhao, Limei; Kolwicz Jr, Stephen C; Pabon, Lil; Reinecke, Hans; Sniadecki, Nathan J; Tian, Rong; Ruohola-Baker, Hannele; Xu, Haodong; Murry | Stem cell reports. | 2019 10 08; | 31564645 | |
| Nuclear pores as versatile reference standards for quantitative superresolution microscopy. | Thevathasan, Jervis Vermal; Kahnwald, Maurice; Cie?li?ski, Konstanty; Hoess, Philipp; Peneti, Sudheer Kumar; Reitberger, Manuel; Heid, Daniel; Kasuba, Krishna Chaitanya; Hoerner, Sarah Janice; Li, Yiming; Wu, Yu-Le; Mund, Markus; Matti, Ulf; Pereira, Pedro Matos; Henriques, Ricardo; Nijmeijer, Bianca; Kueblbeck, Moritz; Sabinina, Vilma Jimenez; Ellenberg, Jan; Ries, Jonas | Nature methods. | 2019 Oct; | 31562488 | |
| Sci-Hi-C: A single-cell Hi-C method for mapping 3D genome organization in large number of single cells. | Ramani, Vijay; Deng, Xinxian; Qiu, Ruolan; Lee, Choli; Disteche, Christine M; Noble, William S; Shendure, Jay; Duan, Zhijun | Methods (San Diego, Calif.). | 2019 Sep 16; | 31536770 | |
| Jonathan R. Warner (1936-2019)-pioneer of ribosome biosynthesis. | Pederson, Thoru | RNA (New York, N.Y.). | 2019 Dec; | 31534010 | |
| Distinct Classes of Chromatin Loops Revealed by Deletion of an RNA-Binding Region in CTCF. | Hansen, Anders S; Hsieh, Tsung-Han S; Cattoglio, Claudia; Pustova, Iryna; Saldaña-Meyer, Ricardo; Reinberg, Danny; Darzacq, Xavier; Tjian, Robert | Molecular cell. | 2019 11 07; | 31522987 | |
| The fundamental role of chromatin loop extrusion in physiological V(D)J recombination. | Zhang, Yu; Zhang, Xuefei; Ba, Zhaoqing; Liang, Zhuoyi; Dring, Edward W; Hu, Hongli; Lou, Jiangman; Kyritsis, Nia; Zurita, Jeffrey; Shamim, Muhammad S; Presser Aiden, Aviva; Lieberman Aiden, Erez; Alt, Frederick W | Nature. | 2019 Sep; | 31511698 | |
| Chromatin conformation remains stable upon extensive transcriptional changes driven by heat shock. | Ray, Judhajeet; Munn, Paul R; Vihervaara, Anniina; Lewis, James J; Ozer, Abdullah; Danko, Charles G; Lis, John T | Proceedings of the National Academy of Sciences of the United States of America. | 2019 Sep 24; | 31506350 | |
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| Molecular basis and biological function of variability in spatial genome organization. | Finn, Elizabeth H; Misteli, Tom | Science (New York, N.Y.). | 2019 09 06; | 31488662 | |
| A pooled single-cell genetic screen identifies regulatory checkpoints in the continuum of the epithelial-to-mesenchymal transition. | McFaline-Figueroa, José L; Hill, Andrew J; Qiu, Xiaojie; Jackson, Dana; Shendure, Jay; Trapnell, Cole | Nature genetics. | 2019 Sep; | 31477929 | |
| Pattern-Driven Navigation in 2D Multiscale Visualizations with Scalable Insets. | Lekschas, Fritz; Behrisch, Michael; Bach, Benjamin; Kerpedjiev, Peter; Gehlenborg, Nils; Pfister, Hanspeter | IEEE transactions on visualization and computer graphics. | 2020 Jan; | 31442989 | |
| Sox2-Dependent 3D Chromatin Interactomes in Transcription, Neural Stem Cell Proliferation and Neurodevelopmental Diseases. | Wei, Chia-Lin; Nicolis, Silvia K; Zhu, Yanfen; Pagin, Miriam | Journal of experimental neuroscience. | 2019; | 31431802 | |
| Transcriptionally active HERV-H retrotransposons demarcate topologically associating domains in human pluripotent stem cells. | Zhang, Yanxiao; Li, Ting; Preissl, Sebastian; Amaral, Maria Luisa; Grinstein, Jonathan D; Farah, Elie N; Destici, Eugin; Qiu, Yunjiang; Hu, Rong; Lee, Ah Young; Chee, Sora; Ma, Kaiyue; Ye, Zhen; Zhu, Quan; Huang, Hui; Fang, Rongxin; Yu, Leqian; Izpisua Belmonte, Juan Carlos; Wu, Jun; Evans, Sylvia M; Chi, Neil C; Ren, Bing | Nature genetics. | 2019 Sep; | 31427791 | |
| Force-Dependent Facilitated Dissociation Can Generate Protein-DNA Catch Bonds. | Dahlke, Katelyn; Zhao, Jing; Sing, Charles E; Banigan, Edward J | Biophysical journal. | 2019 Sep 17; | 31427067 | |
| Live-Cell Imaging of mRNP-NPC Interactions in Budding Yeast. | Lari, Azra; Farzam, Farzin; Bensidoun, Pierre; Oeffinger, Marlene; Zenklusen, Daniel; Grunwald, David; Montpetit, Ben | Methods in molecular biology (Clifton, N.J.). | 2019; | 31407282 | |
| Controlling the material properties and rRNA processing function of the nucleolus using light. | Zhu, Lian; Richardson, Tiffany M; Wacheul, Ludivine; Wei, Ming-Tzo; Feric, Marina; Whitney, Gena; Lafontaine, Denis L J; Brangwynne, Clifford P | Proceedings of the National Academy of Sciences of the United States of America. | 2019 Aug 09; | 31399547 | |
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| Genome organization around nuclear speckles. | Chen, Yu; Belmont, Andrew S | Current opinion in genetics & development. | 2019 Apr; | 31394307 | |
| Modeling Single-Molecule Conformations of the HoxD Region in Mouse Embryonic Stem and Cortical Neuronal Cells. | Bianco, Simona; Annunziatella, Carlo; Andrey, Guillaume; Chiariello, Andrea M; Esposito, Andrea; Fiorillo, Luca; Prisco, Antonella; Conte, Mattia; Campanile, Raffaele; Nicodemi, Mario | Cell reports. | 2019 08 06; | 31390570 | |
| Learn from Your Elders: Developmental Biology Lessons to Guide Maturation of Stem Cell-Derived Cardiomyocytes. | Marchianò, Silvia; Bertero, Alessandro; Murry, Charles E | Pediatric cardiology. | 2019 Oct; | 31388700 | |
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| Physicochemical mechanotransduction alters nuclear shape and mechanics via heterochromatin formation. | Stephens, Andrew D; Liu, Patrick Z; Kandula, Viswajit; Chen, Haimei; Almassalha, Luay M; Herman, Cameron; Backman, Vadim; O'Halloran, Thomas; Adam, Stephen A; Goldman, Robert D; Banigan, Edward J; Marko, John F | Molecular biology of the cell. | 2019 Aug 01; | 31365328 | |
| Direct Visualization of Single Nuclear Pore Complex Proteins Using Genetically-Encoded Probes for DNA-PAINT. | Schlichthaerle, Thomas; Strauss, Maximilian T; Schueder, Florian; Auer, Alexander; Nijmeijer, Bianca; Kueblbeck, Moritz; Jimenez Sabinina, Vilma; Thevathasan, Jervis V; Ries, Jonas; Ellenberg, Jan; Jungmann, Ralf | Angewandte Chemie (International ed. in English). | 2019 09 09; | 31314157 | |
| Cooler: scalable storage for Hi-C data and other genomically-labeled arrays. | Abdennur, Nezar; Mirny, Leonid | Bioinformatics (Oxford, England). | 2019 Jul 10; | 31290943 | |
| Large distances separate coregulated genes in living Drosophila embryos. | Heist, Tyler; Fukaya, Takashi; Levine, Michael | Proceedings of the National Academy of Sciences of the United States of America. | 2019 07 23; | 31285341 | |
| Archiving and disseminating integrative structure models. | Vallat, Brinda; Webb, Benjamin; Westbrook, John; Sali, Andrej; Berman, Helen M | Journal of biomolecular NMR. | 2019 Jul; | 31278630 | |
| A subset of topologically associating domains fold into mesoscale core-periphery networks. | Huang, Harvey; Chen, Sunnia T; Titus, Katelyn R; Emerson, Daniel J; Bassett, Danielle S; Phillips-Cremins, Jennifer E | Scientific reports. | 2019 Jul 02; | 31266973 | |
| Fluorescence Polarization Control for On-Off Switching of Single Molecules at Cryogenic Temperatures. | Hulleman, Christiaan N; Huisman, Maximiliaan; Moerland, Robert J; Grünwald, David; Stallinga, Sjoerd; Rieger, Bernd | Small methods. | 2018 Sep 11; | 31240238 | |
| LADL: light-activated dynamic looping for endogenous gene expression control. | Kim, Ji Hun; Rege, Mayuri; Valeri, Jacqueline; Dunagin, Margaret C; Metzger, Aryeh; Titus, Katelyn R; Gilgenast, Thomas G; Gong, Wanfeng; Beagan, Jonathan A; Raj, Arjun; Phillips-Cremins, Jennifer E | Nature methods. | 2019 07; | 31235883 | |
| Chromosome dynamics near the sol-gel phase transition dictate the timing of remote genomic interactions. | Khanna, Nimish; Zhang, Yaojun; Lucas, Joseph S; Dudko, Olga K; Murre, Cornelis | Nature communications. | 2019 06 24; | 31235807 | |
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| Chemically activatable viral capsid functionalized for cancer targeting. | Chen, Chun-Chieh; Xing, Li; Stark, Marie; Ou, Tingwei; Holla, Prasida; Xiao, Kai; Kamita, Shizuo G; Hammock, Bruce D; Lam, Kit; Cheng, R Holland | Nanomedicine | 2016 Feb | P:377-90 | 26786134 |
| Imaging Transcription: Past, Present, and Future. | Coleman, Robert A; Liu, Zhe; Darzacq, Xavier; Tjian, Robert; Singer, Robert H; Lionnet, Timothée | Cold Spring Harbor symposia on quantitative biology. | 2016 Jan 13 | 26763984 | |
| The redundancy of the mammalian heterochromatic compartment. | Politz, Joan C Ritland; Scalzo, David; Groudine, Mark | Curr Opin Genet Dev | 2015 Dec 16 | P:1-8 | 26706451 |
| TopDom: an efficient and deterministic method for identifying topological domains in genomes. | Shin, Hanjun; Shi, Yi; Dai, Chao; Tjong, Harianto; Gong, Ke; Alber, Frank; Zhou, Xianghong Jasmine | Nucleic acids research. | 2016 Apr 20; | 26704975 | |
| CTCF-Mediated Human 3D Genome Architecture Reveals Chromatin Topology for Transcription. | Tang, Zhonghui; Luo, Oscar Junhong; Li, Xingwang; Zheng, Meizhen; Zhu, Jacqueline Jufen; Szalaj, Przemyslaw; Trzaskoma, Pawel; Magalska, Adriana; Wlodarczyk, Jakub; Ruszczycki, Blazej; Michalski, Paul; Piecuch, Emaly; Wang, Ping; Wang, Danjuan; Tian, Simon Zhongyuan; Penrad-Mobayed, May; Sachs, Laurent M; Ruan, Xiaoan; Wei, Chia-Lin; Liu, Edison T; Wilczynski, Grzegorz M; Plewczynski, Dariusz; Li, Guoliang; Ruan, Yijun | Cell. | 2015 Dec 17 | V:163 P:1611-27 | 26686651 |
| A hidden Markov random field-based Bayesian method for the detection of long-range chromosomal interactions in Hi-C data. | Xu, Zheng; Zhang, Guosheng; Jin, Fulai; Chen, Mengjie; Furey, Terrence S; Sullivan, Patrick F; Qin, Zhaohui; Hu, Ming; Li, Yun | Bioinformatics (Oxford, England). | 2016 03 01; | 26543175 | |
| Single-cell Hi-C for genome-wide detection of chromatin interactions that occur simultaneously in a single cell. | Nagano, Takashi; Lubling, Yaniv; Yaffe, Eitan; Wingett, Steven W; Dean, Wendy; Tanay, Amos; Fraser, Peter | Nature protocols. | 2015 Dec; | 26540590 | |
| Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes. | Sanborn, Adrian L; Rao, Suhas S P; Huang, Su-Chen; Durand, Neva C; Huntley, Miriam H; Jewett, Andrew I; Bochkov, Ivan D; Chinnappan, Dharmaraj; Cutkosky, Ashok; Li, Jian; Geeting, Kristopher P; Gnirke, Andreas; Melnikov, Alexandre; McKenna, Doug; Stamenova, Elena K; Lander, Eric S; Aiden, Erez Lieberman | Proceedings of the National Academy of Sciences of the United States of America. | 2015 Nov 24; | 26499245 |