Wu J, Akerman M, Sun S, McCombie WR, Krainer AR, Zhang MQ. SpliceTrap: a method to quantify alternative splicing under single cellular conditions. Bioinformatics. 2011 Nov 1;27(21):3010-6. Epub 2011 Sep 6. PubMed PMID: 21896509; PubMed Central PMCID: PMC3198574. 2011 - Publication
Yang S, Yalamanchili HK, Li X, Yao KM, Sham PC, Zhang MQ, Wang J. Correlated evolution of transcription factors and their binding sites. Bioinformatics. 2011 Nov 1;27(21):2972-8. Epub 2011 Sep 6. PubMed PMID: 21896508. 2011 - Publication
Zhirui Hu, Minping Qian and Michael Q. Zhang. Novel Markov model of induced pluripotency predicts gene expression changes in reprogramming. BMC Systems Biology, 2011. 2011 - Publication
Bernard D, Prasanth KV, Tripathi V, Colasse S, Nakamura T, Xuan Z, Zhang MQ , Sedel F, Jourdren L, Coulpier F, Triller A, Spector DL, Bessis A (2010)
“ A long nuclear -retained non-coding RNA regulates synaptogenesis by modulating gene expression. ”EMBO J, 29:3082-93. 2010 - Publication
Wang SM, Zhang MQ. (2010) “Transcriptome study for early hematopoiesis - achievement, challenge and new opportunity.” J Cell Physiol 223(3):549-52. 2010 - Publication
Kinney JB, Murugan A, Callan CG Jr, Cox EC. (2010) “Using deep sequencing to characterize the biophysical mechanism of a transcriptional regulatory sequence.” PNAS May 3. [Epub ahead of print] 2010 - Publication
Wang SM, Zhang MQ. (2010) “Transcriptome study for early hematopoiesis - achievement, challenge and new
opportunity.” J Cell Physiol 223(3):549-52. 2010 - Publication
Mitra R, Bandyopadhyay S, Maulik U, Zhang MQ . (2010)
“ SFSSClass: an integrated approach for miRNA based tumor classification.BMC Bioinformatics. ” 2010 Jan 18;11 Suppl 1:S22. 2010 - Publication
Chicas A, Wang X, Zhang C, McCurrach M, Zhao Z, Mert O, Dickins RA, Narita M, Zhang M, Lowe SW. (2010) “Dissecting the unique role of the retinoblastoma tumor suppressor during cellular senescence.” Cancer Cell 17(4):376-87. 2010 - Publication
Harris RA, Wang T, Coarfa C, Nagarajan RP, Hong C, Downey SL, Johnson BE, Fouse SD, Delaney A, Zhao Y, Olshen A, Ballinger T, Zhou X, Forsberg KJ, Gu J, Echipare L, O'Geen H, Lister R, Pelizzola M, Xi Y, Epstein CB, Bernstein BE, Hawkins RD, Ren B, Chung WY, Gu H, Bock C, Gnirke A, Zhang MQ , Haussler D, Ecker JR, Li W, Farnham PJ, Waterland RA, Meissner A, Marra MA, Hirst M, Milosavljevic A, Costello JF. (2010) 2010 - 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.