Biography

I am an Assistant Professor in the Department of Population and Data Sciences, as well as a member of the Quantitative Biomedical Research Center (QBRC) and the Harold C. Simmons Cancer Center at UT Southwestern Medical Center. With training in biostatistics and bioinformatics, I have a good understanding of translational research, developing predictive and prognostic biomarkers, and personalized medicine. My primary statistical expertise is in machine learning, algorithm development for processing next-generation sequencing data, prediction model building, and development of data management system. During my Ph.D. career in the Biostatistics program in Cornell University, I received comprehensive training in integrated analysis of high-dimensional datasets, machine learning, Bayesian modeling and developing bioinformatics algorithms to analyze next-generation sequencing data. During my postdoc career, I received systematic training in clinical medicine. I also have extensive experience on the analysis of clinical trials and epidemiological studies, as well as the development and maintenance of comprehensive databases.  

 

Since I joined UT Southwestern as an Assistant Professor, my research interests are developing bioinformatics algorithms and deep learning models to identify new disease genes and therapeutic targets for human diseases, as well as development and maintenance of data management system for genomic and clinical databases. My lab’s research works have been published in a series of high-impact journals, including Nature, Elife, PNAS, Genes & Development, Cell Reports, Nature Communications, Science Immunology, Cancer Research, Clinical Cancer Research and Developmental Cell.  

 

With extensive experience in data science, I have been the leading PI or co-PI of multiple grants from a variety of funding resources, including the National Cancer Institute (NCI), National Heart, Lung, and Blood Institute (NHLBI), Cancer Prevention and Research Institute of Texas (CPRIT), Hyundai Pediatric Cancer Foundation, Children’s Cancer Fund, Rally Foundation, Dysimmune Diseases Foundation and Andrew McDonough B+ Foundation. 

 

 

Research Interest

  • pediatric cancer, muscle defects, heart diseases, diabetes

Publications

Featured Publications LegendFeatured Publications

Development of a Data Model and Data Commons for Germ Cell Tumors.
Ci B, Yang DM, Krailo M, Xia C, Yao B, Luo D, Zhou Q, Xiao G, Xu L, Skapek SX, Murray MM, Amatruda JF, Klosterkemper L, Shaikh F, Faure-Conter C, Fresneau B, Volchenboum SL, Stoneham S, Lopes LF, Nicholson J, Frazier AL, Xie Y, JCO Clin Cancer Inform 2020 Jun 4 555-566
Tumor neoantigenicity assessment with CSiN score incorporates clonality and immunogenicity to predict immunotherapy outcomes.
Lu T, Wang S, Xu L, Zhou Q, Singla N, Gao J, Manna S, Pop L, Xie Z, Chen M, Luke JJ, Brugarolas J, Hannan R, Wang T, Sci Immunol 2020 Feb 5 44