简体中文 English 中心历 会场预定

定量生物学中心英文

Zexian ZENG


Phone: +86 01-62750092

E-mail: zexianzeng@pku.edu.cnlab/

Lab website: http://cqb.pku.edu.cn/zenglab/



Academic experiences:

Assistant Professor, Center for Quantitative  Biology (CQB), Center for Life Science (CLS), Peking University

Postdoctoral Fellow, 2019-2022. Department of Data Science, Dana-Farber Cancer Institute

& Department of Biostatistics, Harvard T.H. Chan School of Public Health

Graduate Research Fellow, 2014-2019. Department of Preventive Medicine, Northwestern University


Education:

PhD, 2019 in Biomedical informatics. Northwestern University, Chicago IL

MS, 2014 in Computer Science. University of Wisconsin-Madison, Madison WI

BS, 2011 in Detection Guidance & Control Technology. Beijing Institute of Technology, Beijing

 

Research interests:

Cancer immunology and immunotherapy, cell signaling, and gene expression regulation

Data mining and bioinformatics tool development

Machine learning method development


Selected publications:

  • Lijian Wu, Yiteng Jin, Xi Zhao, Kaiyang Tang, Yaoning Zhao, Linjie Tong, Xuerong Yu, Ke Xiong, Ce Luo, Jiajun Zhu, Fubing Wang*, Zexian Zeng*, Deng Pan*. Tumor aerobic glycolysis confers immune evasion through modulating sensitivity to T cell-mediated bystander killing via TNF-α. Cell Metabolism. July 27, 2023DOI:https://doi.org/10.1016/j.cmet.2023.07.001.

  • Zeng Z#, Gu S#, Wong C, Li D, Lin Y, Wong C, Ouardaoui N, Zhang W, Brown M, Liu XS: Machine learning on syngeneic mouse tumor profiles to model clinical immunotherapy response. Science Advances (2022) 10.1126.

  • Zeng Z*, Gu S*, Yang L, Wong C, Ouardaoui N, Zhang W, Li D, Weirather J, Zhang Y, Meyer C, Rodig S, Hodi SF*, Brown M*, Liu XS*: Hippo signaling pathway regulates cancer cell-intrinsic MHC-II expression. Cancer Immunology Research (2022) 10.1158.

  • Li Y#, Dennis S#, Hutch MR#, Li Y, Broad MS, Zeng Z*, Luo Y*. SOAR: a spatial transcriptomics analysis resource to model spatial variability and cell type interactions. bioRxiv (2022). 2022.04.17.488596.

  • Zeng Z#, Li Y#, Li Yi#, Luo Y: Computational methods for spatially resolved transcriptomics data analysis. Genome Biology (2022) 10.0265

  • Zeng Z*,#, Wong C#, Lin Y#, Li D, Zhang Y, Gu S, Zhang W, Kim S, Yates K, Freeman G, Brown M, Manguso R, Liu XS*: TISMO: syngeneic mouse tumor database to model tumor immunity and immunotherapy response. Nucleic Acids Research (2021) 10.1093

  • Zeng Z#, Fu J#, Cibulskis C, Jhaveri A, Gumbs C, Das B, … & Liu XS*, Wu C*: Cross-site concordance evaluation of tumor DNA and RNA sequencing platforms for the CIMAC-CIDC network. Clinical Cancer Research. (2021).20.3251

  • Kumar S#, Zeng Z#, Bagati A#, Tay Re#, Sanz L, Hartono SR, … & Liu XS*, Wucherpfennig K*: Carm1 inhibition enables immunotherapy of resistant tumors by dual action on tumor and T-cells. Cancer Discovery (2021). 20-1144

  • Zhou L#, Zeng Z#, Egloff A, Zhang F, Guo F, Cambell K, Du P, … & Liu XS*, Uppaluri R*: Checkpoint blockade induced CD8+ T cell differentiation in responders in head and neck cancers. Journal for ImmunoTherapy of Cancer (2021). 10 (1), e004034

  • Wang X, Tokheim C, Wang B, Gu S, Tang Q, li Y, Traugh N, Zeng Z, Zhang Y, Li Z, Zhang B, Fu J, …, Brown M*, Liu XS*: In vivo CRISPR screens identify E3 ligase Cop1 as a modulator of macrophage infiltration and cancer immunotherapy target. Cell (2021) 09.006

  • Gu S#, Zhang W#, Wang X#, Jiang P, Traugh N, Li Z, Meyer C, … & Tewari AK, Zeng Z, … & Brown M*, Liu XS*: Therapeutically increasing MHC-I expression potentiates immune checkpoint blockade. Cancer Discovery. (2021) 20.0812

  • Cui Y, Cheng X, Chen Q, Song B, Chiu A, Gao Y, Dawson T, Chao L, Zhang W, Li D, Zeng Z, Yu J, Li Z, Fei T, Peng S, Li W: CRISP-view: a database of functional genetic screens spanning multiple phenotypes. Nucleic Acids Research. (2021).56(2)

  • Ranjan M, Lee O, Cottone G, Mirzaei Spike, Zeng Z., ... & Khan, S. A: Progesterone receptor antagonists reverse stem cell expansion and the paracrine effectors of progesterone action in the mouse mammary gland. Breast Cancer Research, (2021). 23(1), 1-17.

  • Zeng Z, Vo A, Li X, Shidfar Ali, Saldana P, Xuei X, Luo Y, Khan AS, Clare SE: Somatic genetic aberrations in benign breast disease and the risk of subsequent breast cancer. npj Breast Cancer. (2020). 6(1),1-11

  • Zeng Z, Amin A, Roy A, Pulliam N, Karavites L, Espino S, Li X, Luo Y, Khan AS: Preoperative magnetic resonance imaging and oncologic outcomes in premenopausal breast cancer patients. npj Breast Cancer. (2020). 6(1),1-8.

  • Zeng Z, Fan Z, Xie X, Swartz C, DePriest P, Li J: A two-level iteration approach for modeling and analysis of rapid response process with multiple deteriorating patients. Flexible Service and Manufacturing. (2020). 1-37

  • Zeng Z, Mao C, Vo A, Li X, Nugene J, Khan AS, Clare SE, Luo Y: Deep learning for cancer type classification and driver gene identification. BMC Bioinformatics. (2020) (18)1

  • Gu S#, Wang X#, Hu X, Jiang P, Li Z, Traugh N, Bu X, Tang Q, Wang C, Zeng Z, Fu J, Meyer C, … & Brown M*, Liu XS*: Clonal Tracing reveals diverse patterns of response to immune checkpoint blockade. Genome Biology. (2020). 10-118

  • Li T, Fu J, Zeng Z, Cohen D, Li J, Chen Q, Li B, Liu XS: TIMER2.0 for Analysis of Tumor-Infiltrating Immune Cells. Nucleic Acids Research. (2020). 48(1)

  •  Lee, O, Sullivan M, Xu Y, Rogers C, Muzzio M, Helenowski I, Shidfar A, Zeng Z, Hansen, N, etc., Khan S: Selective progesterone receptor modulators in early-stage breast cancer: a randomized, placebo-controlled phase II window-of-opportunity trial using telapristone acetate. Clinical Cancer Research. (2020). 26(1), 25-34

  • Zeng Z, Vo A, Mao C, Clare S, Khan S, Luo Y: Cancer classification and pathway discovering using non-negative matrix factorization. Journal of Biomedical Informatics. (2019): 103247

  • Zeng Z, Yao L, Roy A, Li X, Espino S, Clare S, Khan S, Luo Y: Identifying breast cancer distant recurrence from electronic health records using machine learning. Journal of Healthcare Informatics Research. (2019). 1-17

  • Chen N, Xie X, Zeng Z, Zhong X, Brenny-Fitzpatrick M, Liegel B, Zheng L, Li J: Improving discharge process at the University of Wisconsin Hospital: a system-theoretic method. IEEE Transactions on Automation Science and Engineering. (2019) 7(45)Zimmerman L, Reyfman P, Smith A, Zeng Z, Kho A, Sanchez-pinto L Luo Y: Early prediction of acute kidney injury following ICU admission. BMC Medical Informatics and Decision Making. (2019). 19(1),16

  • Zeng Z, Xie X, Menaker H, Sanford-Ring SG, Li J: Performance evaluation of operating room schedules in orthopedic surgery. Flexible Services and Manufacturing. (2018), 30(1-2):198-223.

  • Zeng Z, Deng Y, Li X, Naumann T, Luo Y: Natural language processing for EHR-based computational phenotyping. IEEE/ACM Transactions on Computational Biology and Bioinformatics. (2018):1-1

  • Zeng Z, Espino S, Roy A, Li X, Khan S, Clare S, Jiang X, Neapolitan R, Luo Y: Using natural language processing and machine learning to identify breast cancer local recurrence. BMC Bioinformatics. (2018), 19(Suppl 17):498

  • Luo Y, Thompson WK, Herr TM, Zeng Z, Berendsen MA, Jonnalagadda SR, Carson MB, Starren J: Natural language processing for EHR-based pharmacovigilance: a structured review. Drug Safety. (2017):1-15

  • Zeng Z, Jiang X, Neapolitan R: Discovering causal interactions using Bayesian network scoring and information gain. BMC bioinformatics, (2016), 17(1):1.