Yong Zhang 张勇
Yong Zhang 张勇
Professor of Bioinformatics, Tongji University
Verified email at tongji.edu.cn - Homepage
TitleCited byYear
Model-based analysis of ChIP-Seq (MACS)
Y Zhang, T Liu, CA Meyer, J Eeckhoute, DS Johnson, BE Bernstein, ...
Genome Biol 9 (9), R137, 2008
63412008
FoxA1 translates epigenetic signatures into enhancer-driven lineage-specific transcription
M Lupien, J Eeckhoute, CA Meyer, Q Wang, Y Zhang, W Li, JS Carroll, ...
Cell 132 (6), 958-970, 2008
8182008
Androgen receptor regulates a distinct transcription program in androgen-independent prostate cancer
Q Wang, W Li, Y Zhang, X Yuan, K Xu, J Yu, Z Chen, R Beroukhim, ...
Cell 138 (2), 245-256, 2009
7702009
PPARγ and C/EBP factors orchestrate adipocyte biology via adjacent binding on a genome-wide scale
MI Lefterova, Y Zhang, DJ Steger, M Schupp, J Schug, A Cristancho, ...
Genes & development 22 (21), 2941, 2008
5962008
Identifying ChIP-seq enrichment using MACS
J Feng, T Liu, B Qin, Y Zhang, XS Liu
Nature Protocols 7 (9), 1728-1740, 2012
5902012
Cistrome: an integrative platform for transcriptional regulation studies
T Liu, JA Ortiz, L Taing, CA Meyer, B Lee, Y Zhang, H Shin, SS Wong, ...
Genome Biology 12 (8), R83, 2011
4372011
Nucleosome dynamics define transcriptional enhancers
HH He, CA Meyer, H Shin, ST Bailey, G Wei, Q Wang, Y Zhang, K Xu, ...
Nature genetics 42 (4), 343-347, 2010
4202010
Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo
Y Zhang, Z Moqtaderi, BP Rattner, G Euskirchen, M Snyder, JT Kadonaga, ...
Nature structural & molecular biology 16 (8), 847-852, 2009
3772009
Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer
Z Du, T Fei, RGW Verhaak, Z Su, Y Zhang, M Brown, Y Chen, XS Liu
Nature structural & molecular biology 20 (7), 908-913, 2013
3412013
Chromatin signature of embryonic pluripotency is established during genome activation
NL Vastenhouw, Y Zhang, IG Woods, F Imam, A Regev, XS Liu, J Rinn, ...
Nature 464 (7290), 922-926, 2010
2972010
NONCODE: an integrated knowledge database of non-coding RNAs
C Liu, B Bai, G SkogerbÝ, L Cai, W Deng, Y Zhang, D Bu, Y Zhao, R Chen
Nucleic acids research 33 (suppl_1), D112-D115, 2005
2652005
A transcriptional signature and common gene networks link cancer with lipid metabolism and diverse human diseases
HA Hirsch, D Iliopoulos, A Joshi, Y Zhang, SA Jaeger, M Bulyk, ...
Cancer Cell 17 (4), 348-361, 2010
2642010
GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data
J Feng, CA Meyer, Q Wang, JS Liu, XS Liu, Y Zhang
Bioinformatics, 2012
2212012
Distinct features of H3K4me3 and H3K27me3 chromatin domains in pre-implantation embryos
X Liu, C Wang, W Liu, J Li, C Li, X Kou, J Chen, Y Zhao, H Gao, H Wang, ...
Nature 537 (7621), 558-562, 2016
1742016
Using MACS to Identify Peaks from ChIP‐Seq Data
J Feng, T Liu, Y Zhang
Current Protocols in Bioinformatics 2, 1-2.14, 2011
1702011
Target analysis by integration of transcriptome and ChIP-seq data with BETA
S Wang, H Sun, J Ma, C Zang, C Wang, J Wang, Q Tang, CA Meyer, ...
Nature protocols 8 (12), 2502-2515, 2013
1532013
Systematic evaluation of factors influencing ChIP-seq fidelity
Y Chen, N Negre, Q Li, JO Mieczkowska, M Slattery, T Liu, Y Zhang, ...
Nature methods 9 (6), 609-614, 2012
1482012
Identifying positioned nucleosomes with epigenetic marks in human from ChIP-Seq
Y Zhang, H Shin, JS Song, Y Lei, XS Liu
BMC genomics 9 (1), 537, 2008
1332008
A Comprehensive View of Nuclear Receptor Cancer Cistromes
Q Tang, Y Chen, C Meyer, T Geistlinger, M Lupien, Q Wang, T Liu, ...
Cancer Research, 2011
1062011
Nucleosome depletion at yeast terminators is not intrinsic and can occur by a transcriptional mechanism linked to 3’-end formation
X Fan, Z Moqtaderi, Y Jin, Y Zhang, XS Liu, K Struhl
Proceedings of the National Academy of Sciences 107 (42), 17945-17950, 2010
842010
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