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
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
Bibhu P MishraResearch Scientist, Broad InstituteVerified email at dartmouth.edu
Patricia ErnstProfessor of Pediatrics and of PharmacologyVerified email at cuanschutz.edu

Chao Cheng

Baylor College of Medicine

Verified email at bcm.edu - Homepage

Computational Biology Cancer Systems Biology


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	17043	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	1702	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	1133	2010
A user's guide to the encyclopedia of DNA elements (ENCODE) ENCODE Project Consortium PLoS Biol 9 (4), e1001046, 2011	866	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	580	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	569	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	490	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	344	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	336	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	327	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	307	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	301	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	264	2011
Big data bioinformatics C Greene, J Tan, M Ung, J Moore, C Cheng J. Cell. Physiol., 2014	254	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	229	2014
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	224	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	213	2017
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	212	2020
Understanding transcriptional regulation by integrative analysis of transcription factor binding data C Cheng, R Alexander, R Min, J Leng, KY Yip, J Rozowsky, KK Yan, ... Genome Research 22 (9), 1658-1667, 2012	200	2012
Identification of cell cycle–regulated genes periodically expressed in U2OS cells and their regulation by FOXM1 and E2F transcription factors GD Grant, L Brooks 3rd, X Zhang, JM Mahoney, V Martyanov, TA Wood, ... Molecular biology of the cell 24 (23), 3634-3650, 2013	198	2013

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