Cheng J, Zhu Y, He S, Lu Y, Chen J, Han B, Petrillo M, Wrzeszczynski KO, Yang S, Dai P, Zhai S, Han D, Zhang MQ, Li W, Liu X, Li H, Chen ZY, Yuan H. Functional mutation of SMAC/DIABLO, encoding a mitochondrial proapoptotic protein, causes human progressive hearing loss DFNA64. Am J Hum Genet. 2011 Jul 15;89(1):56-66. Epub 2011 Jun 30. PubMed PMID: 21722859; PubMed Central PMCID: PMC3135809. 2011 - Publication
Zhang MQ. Computational Promoter Prediction in a Vertebrate genome.
Chapter in "Handbook of Statistical Bioinformatics". Springer Handbooks of Computational Statistics.
Lu H, Scholkopf B and Zhao H (Eds). (2011) ISBN: 978-3-642-16344-9. 2011 - Publication
Kato M, Yoon S, Hosono N, Leotta A, Sebat J, Tsunoda T and Zhang MQ. Inferring Haplotypes of Copy Number Variations From High-Throughput Data With Uncertainty. G3 Genes Genomes Genetics (2011) Jun; 1:35-42. 2011 - Publication
Rajan P, Dalgliesh C, Carling PJ, Buist T, Zhang C, Grellscheid SN, Armstrong K, Stockley J, Simillion C, Gaughan L, Kalna G, Zhang MQ, Robson CN, Leung HY, Elliott DJ. Identification of Novel Androgen-Regulated Pathways and mRNA Isoforms through Genome-Wide Exon-Specific Profiling of the LNCaP Transcriptome. PLoS One. 2011;6(12):e29088. Epub 2011 Dec 14. PubMed PMID: 22194994; PubMed Central PMCID: PMC3237596. 2011 - Publication
Qin J, Li MJ, Wang P, Zhang MQ, Wang J. ChIP-Array: combinatory analysis of ChIP-seq/chip and microarray gene expression data to discover direct/indirect targets of a transcription factor. Nucleic Acids Res. 2011 Jul;39(Web Server issue):W430-6. Epub 2011 May 17. PubMed PMID: 21586587; PubMed Central PMCID: PMC3125757. 2011 - Publication
Zhang Z, Zhang MQ (2011) Histone modification profiles are predictive for tissue/cell-type specific expression of both protein-coding and microRNA genes. BMC Bioinformatics. (Accepted) 2011 - Publication
Wrzeszczynski KO, Varadan V, Byrnes J, Lum E, Kamalakaran S, Levine DA, Dimitrova N, Zhang MQ, Lucito R. Identification of tumor suppressors and oncogenes from genomic and epigenetic features in ovarian cancer. PLoS One. 2011;6(12):e28503. Epub 2011 Dec 8. PubMed PMID: 22174824; PubMed Central PMCID: PMC3234280. 2011 - Publication
Wang LY, Wang P, Li MJ, Qin J, Wang X, Zhang MQ, Wang J. EpiRegNet: constructing epigenetic regulatory network from high throughput gene expression data for humans. Epigenetics. 2011 Dec 1;6(12):1505-12. PubMed PMID: 22139581. 2011 - Publication
Shen M, Eyras E, Wu J, Khanna A, Josiah S, Rederstorff M, Zhang MQ, Stamm S. Direct cloning of double-stranded RNAs from RNase protection analysis reveals processing patterns of C/D box snoRNAs and provides evidence for widespread antisense transcript expression. Nucleic Acids Res. 2011 Dec 1;39(22):9720-9730. Epub 2011 Aug 31. PubMed PMID: 21880592; PubMed Central PMCID: PMC3239178. 2011 - Publication
Watts JA, Zhang C, Klein-Szanto AJ, Kormish JD, Fu J, Zhang MQ, Zaret KS. Study of FoxA pioneer factor at silent genes reveals Rfx-repressed enhancer at Cdx2 and a potential indicator of esophageal adenocarcinoma development. PLoS Genet. 2011 Sep;7(9):e1002277. Epub 2011 Sep 15. PubMed PMID: 21935353; PubMed Central PMCID: PMC3174211. 2011 - Publication
Researchers from the School of Natural Sciences and Mathematics
at The University of Texas at Dallas have teamed with colleagues at the UT Southwestern Children’s Medical Center Research Institute
to create a new method for understanding the causes of genetic diseases, such as sickle cell anemia and some cancers.
The new system allows researchers to define the molecular structures that control the activity of regulatory DNA sequences in the human genome. Dr. Michael Q. Zhang
and postdoctoral researcher Dr. Yong Chen from Zhang’s Computational Biology Laboratory
— along with assistant professor of biological sciences Dr. Zhenyu Xuan
— collaborated on the formulation of the system called CAPTURE, or CRISPR Affinity Purification in situ of Regulatory Elements. Their work was published in a recent issue of the journal Cell.
Doctoral student Peng Xie came to The University of Texas at Dallas primarily to follow his mentor, Dr. Michael Q. Zhang
, and his passion, computational biology.
In the three years he has been on campus, Xie has exemplified the multitude of reasons that promising graduate students come to UT Dallas — opportunity, support and career advancement.
Xie is a member of the first cohort of the Eugene McDermott Graduate Fellows Program
. In addition to a stipend, tuition and fees, and a research budget, the McDermott fellowship provides professional development and enrichment opportunities.
Dr. Michael Zhang, a leading scientist in computational biology and genomic research, has joined UT Dallas as professor and Cecil H. and Ida Green Distinguished Chair of Systems Biology Science. Zhang’s chaired position in the School of Natural Sciences and Mathematics begins establishment of a new Center for Systems Biology. “In attracting a researcher of the stature of Dr. Zhang to our faculty, we expect to nucleate a major effort in genomics and computational biology that focuses on the genetic underpinnings of disease,” said Myron Salamon, dean of the School of Natural Sciences and Mathematics. Computational biology bridges the life sciences and quantitative sciences – mathematics, statistics and computer science – to understand living systems.