Michael Q. Zhang
Michael Q. Zhang
Professor
Dept of MCB, Center for Systems Biology, UT Dallas, USA
Email: michael.zhang@utdallas.edu

Guest Professor in both school of Information Science and Technology and Medical School
Adjunct professor in Life School
Doctoral Supervisor
Director of Center for Synthetic and Systems Biology, Tsinghua U., Beijing
Qian Ren Ji Hua Distinguished Adjunct Professor
Chang Jiang Chair Professor
Email: michaelzhang@tsinghua.edu.cn

Research  Top

Computational Biology, Synthetic biology and system biology, especially high-throughput technology and high performance computational researches, focus on gene regulation network and metabolic network during the cell developing, differentiation and apoptosis, and the application in cancer, bioenergy and environment.

Publications£º  Top

Recent

  • Xie W, Schultz M, Lister R, Hou Z, Rajagopal N, Ray P, Whitaker JW, Tiam S, Hawkins DR, Leung D, Yang H, Wang T, Swanson SA, Zhang J, Zhu Y, Lee AY, Kim A, Nery J, Urich MA, Kuan S, Yen C, Klugman S, Yu P, Suknuntha K, Propson NE, Chen H, Edsall LE, Wagner U, Li Y, Ye Z, Kulkarni A, Xuan Z, Chung W, Chi NC, Antosiewicz-Bourget J, Slukvin I, Stewart R, Zhang MQ, Wang W, Thomson JA, Eckert JR, Ren B (2013) Epigenomic Analysis of Multi-lineage Differentiation of Human Embryonic Stem Cells. Cell, In press.
  • Wen-Yu Chung, Robert J. Schmitz, Tanya Biorac, Delia Ye, Miroslav Dudas, Gavin D. Meredith, Christopher C. Adams, Joseph R. Ecker and Michael Q. Zhang (2013) Constructing hepitypes: phasing local genotype and DNA methylation. JNSNE, In press.
  • Megha Rajaram; Jianping Zhang; Tim Wang; Cem Kuscu; Mamoru Kato; Vladimir Grubor; Robert Weil; Asluag Helland; Anne-Lise Borrenson-Dale; Kathleen Cho; Douglas A Levine; Alan N Houghton; Jedd D Wolchok; Lois Myeroff; Sanford D Markowitz; Michael Zhang; Alex Krasnitz; Robert Lucito; David Mu; Scott Powers (2013) Two Distinct Categories of Focal Deletions in Cancer Genomes. PLoS ONE, submitted.
  • Akerman M, Zhang MQ, Krainer A. (2013) ProteoMirExpress: inferring microRNA-centered regulatory networks from high throughput proteomic and mRNA expression data. MCP, Submitted.
  • Tang MH, Varadan V, Kamalakaran S, Zhang MQ, Dimitrova N, Hicks J. (2013) Major chromosomal breakpoint intervals in breast cancer co-localize with differentially methylated regions. Front Oncol. 2:197. PMID:23293768
  • Xing H, Liao W, Mo Y, Zhang MQ. £¨2012£©A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types. J Vis Exp, Dec 10;(70). doi:pii: 4273. We H*, Li Y*, Malek SN, Kim YC, Xu J, Chen P, Xiao F, Huang X, Zhou X, Xuan Z, Mankala S, Rowley JD, Zhang MQ, Wang SM (2012) New fusion transcripts identified in normal karyotype acute myeloid leukemia. PLoS ONE. 7:e51203.
  • Ouyang W, Will L, Luo CT, Yin N, Huse M, Kim MV, Peng M, Chan P, Ma Q, Mo Y, Meijer D, Zhao K, Rudensky AY, Atwal G, Zhang MQ*, Li MO* (2012) Novel Foxo1-dependent Transcriptional Programs Control Treg Cell Function. Nature. In press.
  • Xing H, Liao W, Mo Y, Zhang MQ (2012) A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types. J Vis Exp, Dec 10;(70). doi:pii: 4273.
  • Xing H*, Mo Y, Liao W, Zhang MQ* (2012) Genomewide localization of protein-DNA binding and histone modification by BCP with ChIP-seq data. PLoS CB, 8(7): e1002613.
  • Sleumer MC, Wei G, Wang Y, Chang H, Xu T, Chen R, Zhang MQ (2012) Regulatory elements of Caenorhabditis elegans ribosomal protein genes. BMC Genomics. 13:433. PMID:22401550.
  • Li R, Guo W, Gu J, Zhang MQ, Wang XW (2012) Chromatin state and microRNA determine different gene expression dynamics responsive to TNF stimulation. Genomics. [Epub ahead of print] PMID:22824656..
  • Zhang Z, Ma X, Zhang MQ (2012) Bivalent-like chromatin markers are predictive for transcription start site distribution in human. PLoS ONE, 7:e38112. PMID:22768038.
  • Chicas A*, Kapoor A*, Wang X*, Evertts AG, Benjam G, Zhang MQ, Bernstein E, Lowe SW, (2012) H3K4 demethylation by Jarid1a and Jarid1b contributes to RB-mediated gene silencing during cellular senescence. PNAS, 109:8971-6. PMID:22615382.
  • Zhang J, Wu Z, Gao C, Zhang MQ (2012) High-order interactions in Rheumatoid Arthritis detected by Bayesian method using GWAS data. American Medical Journal, 3:56-66.
  • Zhang C, Zhang MQ (2012) Identification of Splicing Factor Target Genes by High-throughput Sequencing. Chap. 51 in Alternative pre-mRNA Splicing: Theory and Protocols. Eds. Stamm S, Smith C, Luhrmann R. Wiley-Blackwell, Weinheim, Germany.
  • Zhang MQ (2012), Dissecting Splicing Regulatory Network by Integrative Analysis of CLIP-Seq Data. Chap 12 in Bioinformatics for High Throughput Sequencing, eds. Rodriguez-Ezpeleta N, Hackenberg M, Aransay AM. p209. ISBN978-1-4614-0781-2, Springer.
  • Zhang J, Zhang Q, Lewis D, Zhang MQ (2012) A Bayesian Method for Disentangling Dependent Structure of Epistatic Interaction. Am. J. Biostat., 2:1-10.
  • He M, Liu Y, Wang X, Zhang MQ, Hannon GJ, Huang ZJ (2012) Cell-type based analysis of microRNA profiles in the mouse brain. Neuron. 73:35-48. PMID:22243745.
  • Ma X, Kulkarni A, Zhang Z, Xuan Z, Serfling R, Zhang MQ (2012) POSMO: A highly efficient and effective motif discovery method for ChIP-seq/ChIP-chip data using positional information. Nucl. Acid. Res. PMID:22228832.

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Updated on April. 5, 2012