Yong Zhang

发表

DiNuP: a systematic approach to identify regions of differential nucleosome positioning

Jianxing Feng, Xiaole Shirley Liu, Kai Fu, 2012, Bioinform..

NONCODE: an integrated knowledge database of non-coding RNAs

Yi Zhao, Changning Liu, Wei Deng, 2004, Nucleic Acids Res..

CaSNP: a database for interrogating copy number alterations of cancer genome from SNP array data

Zhi Chen, Cheng Li, Meng Zhou, 2010, Nucleic Acids Res..

BSeQC: quality control of bisulfite sequencing experiments

Wei Li, Qian Zhao, Deqiang Sun, 2013, Bioinform..

Dr.seq: a quality control and analysis pipeline for droplet sequencing

Yong Zhang, Sheng'en Hu, Xiao Huo, 2016, Bioinform..

Dynamic Changes in Subgraph Preference Profiles of Crucial Transcription Factors

Lan Chen, Zhihua Zhang, Jie Wang, 2006, PLoS Comput. Biol..

ChiLin: a comprehensive ChIP-seq and DNase-seq quality control and analysis pipeline

Tao Liu, Han Xu, Myles Brown, 2016, BMC Bioinformatics.

CistromeMap: a knowledgebase and web server for ChIP-Seq and DNase-Seq studies in mouse and human

Tao Liu, Qian Wang, Bo Qin, 2012, Bioinform..

NPInter: the noncoding RNAs and protein related biomacromolecules interaction database

Lan Chen, Zhihua Zhang, Jie Wang, 2005, Nucleic Acids Res..

GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data

Qian Wang, Jianxing Feng, Clifford A. Meyer, 2012, Bioinform..

Conservation analysis of small RNA genes in Escherichia coli

Zhihua Zhang, Runsheng Chen, Yong Zhang, 2004, Bioinform..

GeSICA: Genome segmentation from intra-chromosomal associations

Yong Zhang, Yong Zhang, Jianxing Feng, 2012, BMC Genomics.

PPARgamma and C/EBP factors orchestrate adipocyte biology via adjacent binding on a genome-wide scale.

Jonathan Schug, Christian J Stoeckert, Yong Zhang, 2008, Genes & development.

A comprehensive view of nuclear receptor cancer cistromes.

Qian Wang, Tao Liu, Mathieu Lupien, 2011, Cancer research.

Chromatin signature of embryonic pluripotency is established during genome activation

Aviv Regev, X. Shirley Liu, Alexander F. Schier, 2010, Nature.

Nucleosome depletion at yeast terminators is not intrinsic and can occur by a transcriptional mechanism linked to 3’-end formation

Kevin Struhl, Yong Zhang, X Shirley Liu, 2010, Proceedings of the National Academy of Sciences.

Using MACS to Identify Peaks from ChIP‐Seq Data

Tao Liu, Yong Zhang, Yong Zhang, 2011, Current protocols in bioinformatics.

Integrative genomic analyses reveal clinically relevant long non-coding RNA in human cancer

Zhen Su, X. Shirley Liu, Yong Zhang, 2013 .

Evidence against a genomic code for nucleosome positioning Reply to “Nucleosome sequence preferences influence in vivo nucleosome organization”

Kevin Struhl, Yong Zhang, X Shirley Liu, 2010, Nature Structural &Molecular Biology.

Target analysis by integration of transcriptome and ChIP-seq data with BETA

Hanfei Sun, Chongzhi Zang, Clifford A. Meyer, 2013, Nature Protocols.

Canonical nucleosome organization at promoters forms during genome activation

Yong Zhang, Paul van Hummelen, X Shirley Liu, 2014, Genome research.