Scholars@Duke

• Background
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  Education, Training, & Certifications

  • Ph.D., Johns Hopkins Unversity, Bloomberg School of Public Health 2020
• Expertise
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  Subject Headings

  • Big data
  • Biostatistics
  • Computational Biology
  • Genomics
  • Single-Cell Analysis
• Publications & Artistic Works
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  Selected Publications

  • Academic Articles

    • Stephens, Kimberly E., Weiqiang Zhou, Zachary Renfro, Zhicheng Ji, Hongkai Ji, Yun Guan, and Sean D. Taverna. “Global gene expression and chromatin accessibility of the peripheral nervous system in animal models of persistent pain.” J Neuroinflammation 18, no. 1 (August 26, 2021): 185. https://doi.org/10.1186/s12974-021-02228-6.
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    • Caushi, Justina X., Jiajia Zhang, Zhicheng Ji, Ajay Vaghasia, Boyang Zhang, Emily Han-Chung Hsiue, Brian J. Mog, et al. “Transcriptional programs of neoantigen-specific TIL in anti-PD-1-treated lung cancers.” Nature 596, no. 7870 (August 2021): 126–32. https://doi.org/10.1038/s41586-021-03752-4.
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    • Ji, Z., and H. Ji. “Discussion of “Exponential-Family Embedding With Application to Cell Developmental Trajectories for Single-Cell RNA-seq Data”.” Journal of the American Statistical Association 116, no. 534 (January 1, 2021): 471–74. https://doi.org/10.1080/01621459.2021.1880920.
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    • Dangi, Anil, Naveen R. Natesh, Irma Husain, Zhicheng Ji, Laura Barisoni, Jean Kwun, Xiling Shen, Edward B. Thorp, and Xunrong Luo. “Single cell transcriptomics of mouse kidney transplants reveals a myeloid cell pathway for transplant rejection.” Jci Insight 5, no. 20 (October 15, 2020). https://doi.org/10.1172/jci.insight.141321.
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    • Chen, Zeyu, Zhicheng Ji, Shin Foong Ngiow, Sasikanth Manne, Zhangying Cai, Alexander C. Huang, John Johnson, et al. “TCF-1-Centered Transcriptional Network Drives an Effector versus Exhausted CD8 T Cell-Fate Decision.” Immunity 51, no. 5 (November 2019): 840-855.e5. https://doi.org/10.1016/j.immuni.2019.09.013.
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    • Guinney, Justin, Tao Wang, Teemu D. Laajala, Kimberly Kanigel Winner, J Christopher Bare, Elias Chaibub Neto, Suleiman A. Khan, et al. “Prediction of overall survival for patients with metastatic castration-resistant prostate cancer: development of a prognostic model through a crowdsourced challenge with open clinical trial data.” Lancet Oncol 18, no. 1 (January 2017): 132–42. https://doi.org/10.1016/S1470-2045(16)30560-5.
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    • Ji, Zhicheng, and Hongkai Ji. “TSCAN: Pseudo-time reconstruction and evaluation in single-cell RNA-seq analysis.” Nucleic Acids Research 44, no. 13 (July 27, 2016): e117–e117. https://doi.org/10.1093/nar/gkw430.
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    • Hou, Wenpin, and Zhicheng Ji. “Single-Cell Unbiased Visualization With SCUBI,” n.d.
    • Stephens, Kimberly E., Weiqiang Zhou, Zachary Renfro, Zhicheng Ji, Hongkai Ji, Yun Guan, and Sean D. Taverna. “Dynamics of Global Gene Expression and Chromatin Accessibility of the Peripheral Nervous System in Animal Models of Persistent Pain,” n.d.

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