Computational Epigenomics

We focus on computational challenges in processing, integrating and interpreting cancer epigenomic data.

 

Mingxiang Teng, PhD

  

Assistant Member 
Department of Biostatistics and Bioinformatics 
Moffitt Cancer Center
12902 Magnolia Drive, Tampa, FL 33612
mingxiang dot teng at moffitt dot org

 

Selected Publications

  • Liu X, Gillis N, Jiang C, McCofie A, Shaw TI, Tan AC, Zhao B, Wan L, Duckett DR, Teng M*. An epigenomic fingerprint of human cancers by landscape interrogation of super enhancers at the constituent level. PLoS Computational Biology. 2024;20(2):e1011873.

  • Wang C†, Liu X†, Liang J†, Narita Y†, Ding W†, Li D, Zhang L, Wang H, Leong MML, Hou I, Gerdt C, Jiang C, Zhong Q, Tang Z, Forney C, Kottyan L, Weirauch MT, Gewurz BE, Zeng MS, Jiang S*, Teng M*, Zhao B*. A DNA tumor virus globally reprograms host 3D genome architecture to achieve immortal growth. Nature Communications. 2023;14(1):1598.

  • Liu X, Zhao B, Shaw TI, Fridley BL, Duckett DR, Tan AC, Teng M*. Summarizing internal dynamics boosts differential analysis and functional interpretation of super enhancers. Nucleic Acids Research. 2022;50(6):3115-3127.

  • Teng M*, Du D, Chen D, Irizarry RA. Characterizing batch effects and binding site-specific variability in ChIP-seq data. NAR Genomics and Bioinformatics. 2021;3(4):lqab098.

  • Wang C†, Zhang L†, Ke L, Ding W, Jiang S, Li D, Narita Y, Hou I, Liang J, Li S, Xiao H, Gottwein E, Kaye KM, Teng M*, Zhao B*. Primary effusion lymphoma enhancer connectome links super-enhancers to dependency factors. Nature Communications. 2020;11(1):6318.

  • Guo R†, Jiang C†, Zhang Y, Govande A, Trudeau SJ, Chen F, Fry CJ, Puri R, Wolinsky E, Schineller M, Frost TC, Gebre M, Zhao B, Giulino-Roth L, Doench JG, Teng M*, Gewurz BE*. MYC controls the Epstein-Barr Virus lytic switch. Molecular Cell. 2020;78(4):653-669.e8.

  • Teng M, Irizarry RA*. Accounting for GC-content bias reduces systematic errors and batch effects in ChIP-seq data. Genome Research. 2017;27(11):1930-1938.

  • Teng M, Love MI, Davis CA, Djebali S, Dobin A, Graveley BR, Li S, Mason CE, Olson S, Pervouchine D, Sloan CA, Wei X, Zhan L, Irizarry RA*. A benchmark for RNA-seq quantification pipelines. Genome Biology. 2016;17:74.