MD Anderson Cancer Center - UTHealth
Graduate School of Biomedical Sciences

MM-QS-2018

The study of biostatistics, bioinformatics, systems biology and genomics focuses on developing and applying statistical and mathematical models in close collaboration with biomedical researchers. The mission of the Program in Quantitative Sciences is to train researchers who will contribute to biomedical research by developing new methods for the design and analysis of research studies and by formulating mathematical models of biologic systems, thereby contributing to our understanding of cancer biology and disease processes.

Contact:

Dr. Prahlad Ram, Program Director

Dr. Traver Hart, Program Co-Director

Dr. Liang Li, Program Co-Director



Amy Carter, Program Coordinator
GSBS Office - BSRB S3.8328
Telephone: 713.745.0659


Students affiliated with legacy programs (i.e., those that existed before the GSBS program reorganization), may click here to find information about their program requirements. 


Award Winning Students

Fang Xia from the Quantitative Sciences Program has been selected by the GSBS Student Scholarship Committee and the GSBS Deans as the recipient of the 2017-2018 Jesse B Heath, Jr. Family Legacy Scholarship. This year, this $3,000 award has been designated to recognize an exceptional GSBS student whose research project is in the areas of Quantitative and Computational Biology.

Naveen Ramesh from the Quantitative Sciences Program has been selected by the GSBS Student Scholarship Committee and the GSBS Deans as one of the recipients of the 2017-2018 T.C. Hsu Memorial Scholarship. This $5,000 Scholarship is provided by family and friends of the late Dr. T.C. Hsu, an esteemed faculty member of the GSBS who worked in the area of Cell Biology and Genetics.

Alex Davis from the Quantitative Sciences Program has been selected by the Student Scholarship Committee and the GSBS Deans to receive the 2nd year reappointment of the American Legion Auxiliary Fellowship in Cancer Research. The $5,000 award is provided in recognition of Alex’s accomplishments and his promise as a cancer research scientist.  He will be recognized at the annual American Legion Auxiliary Luncheon at noon on October 27th.


2017 Graduation

GSBS Graduation 5.2017

Pictured Left to Right: Tianjiao Dai, Dr. Sanjay Shete, Xuan Zhu


Quantitative Sciences Student Publications

Current Students

All First-authored papers notated with *

Alexander Davis

Single-cell DNA sequencing reveals a late-dissemination model in metastatic colorectal cancer.
Leung ML, Davis A, Gao R, Casasent A, Wang Y, Sei E, Vilar E, Maru D, Kopetz S, Navin NE.
Genome Res. 2017 Aug;27(8):1287-1299. doi: 10.1101/gr.209973.116. Epub 2017 May 25.
PMID: 28546418

*Tumor evolution: Linear, branching, neutral or punctuated?
Davis A, Gao R, Navin N.
Biochim Biophys Acta. 2017 Apr;1867(2):151-161. doi: 10.1016/j.bbcan.2017.01.003. Epub 2017 Jan 19. Review.
PMID:28110020

Punctuated copy number evolution and clonal stasis in triple-negative breast cancer.
Gao R, Davis A, McDonald TO, Sei E, Shi X, Wang Y, Tsai PC, Casasent A, Waters J, Zhang H, Meric-Bernstam F, Michor F, Navin NE.
Nat Genet. 2016 Oct;48(10):1119-30. doi: 10.1038/ng.3641. Epub 2016 Aug 15.
PMID:27526321

*Computing tumor trees from single cells.
Davis A, Navin NE.
Genome Biol. 2016 May 26;17(1):113. doi: 10.1186/s13059-016-0987-z.
PMID: 27230879

Jake Leighton

Integrated Genomic Analysis of the Ubiquitin Pathway across Cancer Types.
Ge Z, Leighton JS, Wang Y, Peng X, Chen Z, Chen H, Sun Y, Yao F, Li J, Zhang H, Liu J, Shriver CD, Hu H; Cancer Genome Atlas Research Network, Piwnica-Worms H, Ma L, Liang H.
Cell Rep. 2018 Apr 3;23(1):213-226.e3. doi: 10.1016/j.celrep.2018.03.047.
PMID: 29617661

Walter Frank Lenoir

*PICKLES: the database of pooled in-vitro CRISPR knockout library essentiality screens.
Lenoir WF, Lim TL, Hart T.
Nucleic Acids Res. 2018 Jan 4;46(D1):D776-D780. doi: 10.1093/nar/gkx993.
PMID: 29077937

Yihua Liu

*Identification of thresholds for dichotomizing DNA methylation data.
Liu Y, Ji Y, Qiu P.
EURASIP J Bioinform Syst Biol. 2013 Jun 6;2013(1):8. doi: 10.1186/1687-4153-2013-8.
PMID: 23742247

Aislyn Schalck

Multiclonal Invasion in Breast Tumors Identified by Topographic Single Cell Sequencing.
Casasent AK, Schalck A, Gao R, Sei E, Long A, Pangburn W, Casasent T, Meric-Bernstam F, Edgerton ME, Navin NE.
Cell. 2018 Jan 11;172(1-2):205-217.e12. doi: 10.1016/j.cell.2017.12.007. Epub 2018 Jan 4.
PMID: 29307488

Smruthy Sivakumar

TBX2 subfamily suppression in lung cancer pathogenesis: a high-potential marker for early detection.
Khalil AA, Sivakumar S, Lucas FAS, McDowell T, Lang W, Tabata K, Fujimoto J, Yatabe Y, Spira A, Scheet P, Nemer G, Kadara H.
Oncotarget. 2017 Aug 4;8(40):68230-68241. doi: 10.18632/oncotarget.19938. eCollection 2017 Sep 15.
PMID: 28978111

*Genomic Landscape of Atypical Adenomatous Hyperplasia Reveals Divergent Modes to Lung Adenocarcinoma.
Sivakumar S, Lucas FAS, McDowell TL, Lang W, Xu L, Fujimoto J, Zhang J, Futreal PA, Fukuoka J, Yatabe Y, Dubinett SM, Spira AE, Fowler J, Hawk ET, Wistuba II, Scheet P, Kadara H.
Cancer Res. 2017 Nov 15;77(22):6119-6130. doi: 10.1158/0008-5472.CAN-17-1605. Epub 2017 Sep 26.
PMID: 28951454

Rapid and powerful detection of subtle allelic imbalance from exome sequencing data with hapLOHseq.
San Lucas FA, Sivakumar S, Vattathil S, Fowler J, Vilar E, Scheet P.
Bioinformatics. 2016 Oct 1;32(19):3015-7. doi: 10.1093/bioinformatics/btw340. Epub 2016 Jun 10.
PMID: 27288500

Youyi Zhang

Radiomic analysis in prediction of Human Papilloma Virus status.
Yu K, Zhang Y, Yu Y, Huang C, Liu R, Li T, Yang L, Morris JS, Baladandayuthapani V, Zhu H.
Clin Transl Radiat Oncol. 2017 Nov 6;7:49-54. doi: 10.1016/j.ctro.2017.10.001. eCollection 2017 Dec.
PMID: 29594229


Heng Zhou

*Accuracy, Safety, and Reliability of Novel Phase I Trial Designs.
Zhou H, Yuan Y, Nie L.
Clin Cancer Res. 2018 Apr 16. pii: clincanres.0168.2018. doi: 10.1158/1078-0432.CCR-18-0168. [Epub ahead of print]
PMID: 29661774

*BOP2: Bayesian optimal design for phase II clinical trials with simple and complex endpoints.
Zhou H, Lee JJ, Yuan Y.
Stat Med. 2017 Sep 20;36(21):3302-3314. doi: 10.1002/sim.7338. Epub 2017 Jun 7.
PMID: 28589563