Chao Cheng

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Mark GersteinProfessor of Biomedical Informatics, Yale UniversityVerified email at yale.edu
Matthew UngVor BiopharmaVerified email at vorbio.com
Frederick S VarnThe Jackson LaboratoryVerified email at jax.org
Kevin Y YipSanford Burnham Prebys Medical Discovery InstituteVerified email at sbpdiscovery.org
Joel RozowskyResearch Scientist, Yale UniversityVerified email at yale.edu
Koon-Kiu YanBioinformatics Research Scientist, St Jude Children's Research HospitalVerified email at stjude.org
Arminja KettenbachProfessor of Biochemistry and Cell Biology, Geisel School of Medicine at DartmouthVerified email at dartmouth.edu
Ewan BirneyDirector, EMBL-EBIVerified email at ebi.ac.uk
Michael L. Whitfield, PhDChair and Professor of Biomedical Data Science, Geisel School of Medicine at DartmouthVerified email at dartmouth.edu
Daifeng WangAssociate Professor, University of Wisconsin-MadisonVerified email at wisc.edu
Casey S. GreeneBiomedical Informatics; Center for Health AI; University of Colorado Anschutz MedicalVerified email at cuanschutz.edu
Anshul KundajeAssociate Professor, Dept. of Genetics, Dept. of Computer Science, Stanford UniversityVerified email at stanford.edu
James B. BrownLawrence Berkeley National Laboratory; UC Berkeley; Arva Intelligence, Inc.Verified email at lbl.gov
Zhiping WengProf & Chair, Department of Genomics and Computational Biology, UMASS Medical SchoolVerified email at umassmed.edu
Sarah DjebaliIRSD, INSERM U1220, ToulouseVerified email at inserm.fr
Roderic GuigoProfessor of Bioinformatics, Center for Genomic Regulation, Universitat Pompeu FabraVerified email at crg.cat
Thomas GingerasProfessor of Functional Genomics, Cold Spring Harbor LaboratoryVerified email at cshl.edu
Xianjun Dong, PhDAssociate Professor, Department of Neurology and of BIDS, Yale UniversityVerified email at yale.edu
Jing LengVerified email at yale.edu
James DiRenzoCognoscenti ScientificVerified email at dartmouth.edu

Chao Cheng

Baylor College of Medicine

Verified email at bcm.edu - Homepage

Computational Biology Cancer Systems Biology Cancer Genomics Cancer Immunology


Title Sort by citations Sort by year Sort by title	Cited by Cited by	Year
An integrated encyclopedia of DNA elements in the human genome ENCODE Project Consortium Nature 489 (7414), 57, 2012	17441	2012
Architecture of the human regulatory network derived from ENCODE data MB Gerstein, A Kundaje, M Hariharan, SG Landt, KK Yan, C Cheng, ... Nature 489 (7414), 91-100, 2012	1727	2012
Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project MB Gerstein, ZJ Lu, EL Van Nostrand, C Cheng, BI Arshinoff, T Liu, ... Science 330 (6012), 1775, 2010	1152	2010
A user's guide to the encyclopedia of DNA elements (ENCODE) ENCODE Project Consortium PLoS Biol 9 (4), e1001046, 2011	878	2011
A user's guide to the encyclopedia of DNA elements (ENCODE) RM Myers, J Stamatoyannopoulos, M Snyder, I Dunham, RC Hardison, ... PLoS biology 9 (4), 2011	688	2011
A cis-regulatory map of the Drosophila genome N Nègre, CD Brown, L Ma, CA Bristow, SW Miller, U Wagner, ... Nature 471 (7339), 527-531, 2011	591	2011
Life span extension by calorie restriction depends on Rim15 and transcription factors downstream of Ras/PKA, Tor, and Sch9 M Wei, P Fabrizio, J Hu, H Ge, C Cheng, L Li, VD Longo PLoS Genetics 4 (1), e13, 2008	580	2008
Sir2 blocks extreme life-span extension P Fabrizio, C Gattazzo, L Battistella, M Wei, C Cheng, K McGrew, ... Cell 123 (4), 655-667, 2005	492	2005
CircNet: a database of circular RNAs derived from transcriptome sequencing data YC Liu, JR Li, CH Sun, E Andrews, RF Chao, FM Lin, SL Weng, SD Hsu, ... Nucleic Acids Res., pii: gkv940, 2015	350	2015
Comparative analysis of the transcriptome across distant species M Gerstein, J Rozowsky, K Yan, D Wang, C Cheng, B Brown, C Davis, ... Nature 512, 445–448, 2014	343	2014
Modeling gene expression using chromatin features in various cellular contexts X Dong, MC Greven, A Kundaje, S Djebali, JB Brown, C Cheng, ... Genome biology 13, 1-17, 2012	334	2012
Classification of human genomic regions based on experimentally determined binding sites of more than 100 transcription-related factors KY Yip, C Cheng, N Bhardwaj, JB Brown, J Leng, A Kundaje, J Rozowsky, ... Genome biology 13, 1-22, 2012	312	2012
A deep learning framework for modeling structural features of RNA-binding protein targets S Zhang, J Zhou, H H, H Gong, L Chen, C Cheng, J Zeng Nucleic Acids Res., gkv1025, 2015	307	2015
Diverse transcription factor binding features revealed by genome-wide ChIP-seq in C. elegans. W Niu, ZJ Lu, M Zhong, M Sarov, JI Murray, CM Brdlik, J Janette, C Cheng, ... Genome Res. 21 (2), 245-254, 2011	267	2011
Big data bioinformatics C Greene, J Tan, M Ung, J Moore, C Cheng J. Cell. Physiol., 2014	262	2014
Comparative analysis of regulatory information and circuits across diverse species A Boyle, C Araya, C Brdlik, P Cayting, C Cheng, Y Cheng, K Gardner, ... Nature 512, 453–456, 2014	234	2014
VISTA is a checkpoint regulator for naïve T cell quiescence and peripheral tolerance MA ElTanbouly, Y Zhao, E Nowak, J Li, E Schaafsma, I Le Mercier, ... Science 367 (6475), eaay0524, 2020	233	2020
Reconstruction of enhancer–target networks in 935 samples of human primary cells, tissues and cell lines Q Cao, C Anyansi, X Hu, L Xu, L Xiong, W Tang, MTS Mok, C Cheng, ... Nature genetics 49 (10), 1428-1436, 2017	228	2017
Immunoregulatory functions of VISTA EC Nowak, JL Lines, FS Varn, J Deng, A Sarde, R Mabaera, A Kuta, ... Immunological reviews 276 (1), 66-79, 2017	221	2017
High-throughput proteomics: a methodological mini-review M Cui, C Cheng, L Zhang Laboratory investigation 102 (11), 1170-1181, 2022	206	2022

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