Chao Cheng
Title
Cited by
Cited by
Year
An integrated encyclopedia of DNA elements in the human genome
ENCODE Project Consortium
Nature 489 (7414), 57, 2012
118162012
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
14032012
A user's guide to the encyclopedia of DNA elements (ENCODE)
ENCODE Project Consortium
PLoS Biol 9 (4), e1001046, 2011
12252011
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
9532010
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
4862008
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
4852011
Sir2 blocks extreme life-span extension
P Fabrizio, C Gattazzo, L Battistella, M Wei, C Cheng, K McGrew, ...
Cell 123 (4), 655-667, 2005
4312005
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 (9), 1-22, 2012
2612012
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
2602014
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 (9), 1-17, 2012
2602012
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
2352015
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
2122011
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
1822014
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
1672012
Big data bioinformatics
C Greene, J Tan, M Ung, J Moore, C Cheng
J. Cell. Physiol., 2014
1662014
Network modeling identifies molecular functions targeted by miR-204 to suppress head and neck tumor metastasis.
Y Lee, X Yang, Y Huang, H Fan, Q Zhang, Y Wu, J Li, R Hasina, C Cheng, ...
PLoS computational biology 6 (4), 2010
1662010
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
1652015
Zebrafish miR-1 and miR-133 shape muscle gene expression and regulate sarcomeric actin organization
Y Mishima, C Abreu-Goodger, AA Staton, C Stahlhut, C Shou, C Cheng, ...
Genes & development 23 (5), 619-632, 2009
1572009
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
1432013
A statistical framework for modeling gene expression using chromatin features and application to modENCODE datasets
C Cheng, KK Yan, KY Yip, J Rozowsky, R Alexander, C Shou, M Gerstein
Genome biology 12 (2), 1-18, 2011
1322011
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Articles 1–20