教育经历

密歇根大学安娜堡分校, 计算药物学与生物信息学系
生物信息学 博士, 2018/9 -
导师: Dr. Jie Liu

北京大学, 化学与分子工程学院
化学生物学 学士, 2014/9 - 2018/7
北京大学优秀毕业生/化学与分子工程学院优秀毕业生

北京大学, 国家发展研究院
经济学 双学位学士, 2015/9 - 2018/7

论文发表

已发表: (*表示共同第一作者)
  • Zhang, Z., Feng, F., Qiu, Y., & Liu., J. (2023). A generalizable framework to comprehensively predict epigenome, chromatin organization, and transcriptome. Nucleic Acids Research, gkad436 [影响因子: 19.2]
  • Feng, F., Tang, F., Gao, Y., Zhu, D., ... & Liu, J. GenomicKB: a knowledge graph for human genomics. Nucleic Acids Research, 51.D1 (2023): D950-D956. [影响因子: 19.2]
  • Zhang, Z., Feng, F., & Liu, J. (2022). Characterizing collaborative transcription regulation with a graph-based deep learning approach. PLoS Computational Biology, 18(6), e1010162. [影响因子: 4.8]
  • Feng, F., Yao, Y., Wang, X. Q. D., Zhang, X., & Liu, J. (2022). Connecting high-resolution 3D chromatin organization with epigenomics. Nature Communications, 13(1), 1-10. [影响因子: 17.7]
  • Li, X., Feng, F., Pu, H., Leung, W. Y., & Liu, J. (2021). scHiCTools: A computational toolbox for analyzing single-cell Hi-C data. PLoS Computational Biology, 17(5), e1008978. [影响因子: 4.8]
  • Himadewi, P.*, Wang, X. Q. D.*, Feng, F.*, Gore, H., Liu, Y., Yu, L., ... & Zhang, X. (2021). 3’HS1 CTCF binding site in human β-globin locus regulates fetal hemoglobin expression. Elife, 10, e70557. [影响因子: 8.7]
  • Zhang, X., Wang, X. Q. D., Gore, H., Himadewi, P., Feng, F., & Liu, J. (2020). 3D Genomics of Acute Meyloid Leukemia Reveals the Imbalance between DNA Methylation Canyon Interactions and Leukemic Specific Enhancer Network Interactions. Blood, 136, 45. [影响因子: 25.5]
  • Feng, F., Lai, L., & Pei, J. (2018). Computational chemical synthesis analysis and pathway design. Frontiers in Chemistry, 6, 199. [影响因子: 5.6]
已提交/审稿中/预印本:
  • Zhang, Z., Feng, F., Qiu, Y., & Liu., J. A generalizable framework to comprehensively predict epigenome, chromatin organization, and transcriptome (提交至Nucleic Acids Research，正在审稿)
  • Tao., Y., Feng, F., Luo, X., & Liu., J. CNTools: A computational toolbox for cellular neighborhood analysis from cell images (提交至Nature Communications，正在审稿)
  • Feng, F., Moran, S. P., & Liu, J. Quagga: a stripe caller for chromatin contact maps (已提交)
  • Wang, X. Q. D., Gore, H., Himadewi, P., Feng, F., Yang, L., ... & Zhang, X. (2020). Three-dimensional regulation of HOXA cluster genes by a cis-element in hematopoietic stem cell and leukemia. bioRxiv.

学术报告

  • “GenomicKB: a knowledge graph for human genome”, Intellectual Systems of Molecular Biology (ISMB), 法国 里昂, 2023/7
  • “A generalizable framework to comprehensively predict epigenome, chromatin organization, and transcriptome”, Great Lakes Bioinformatics (GLBIO) conference, 加拿大 蒙特利尔, 2023/5
  • “An overview of Hi-C downstream analysis”, Chromatin 3D Folding Workshop, 美国 休斯顿 得克萨斯大学休斯顿健康中心, 2023/3
  • “GenomicKB: a knowledge graph for human genome”, Tools and Technology Seminar, 美国 安娜堡 密歇根大学, 2023/1
  • “Connecting high-resolution 3D chromatin organization with epigenomics”, Intellectual Systems of Molecular Biology (ISMB), 美国 麦迪逊, 2022/7
  • “An accurate and interpretable model for predicting high-resolution 3D chromatin organization”, 4DN Consortium Joint Analysis Working Group, 云端会议 2019/9

教学经历

  • 研究生助教/讲师, BIOINF 593/EECS 598 计算生物学中的机器学习算法 (Machine Learning in Computational Biology), 密歇根大学, 2022秋季学期

审稿经历

  • 期刊审稿人, PLoS Computational Biology
  • 会议审稿人, Conference on Neural Information Processing Systems (NeurIPS) AI4Science Workshop
  • 会议审稿人, International Conference on Machine Learning (ICML) AI4Science Workshop

研究兴趣

  • 使用人工智能模型从大规模测序数据中发现规律，理解人类基因组中的转录调控机制
  • 结合算法与实验数据，理解DNA三维结构在基因调控机制中的功能
  • 开发基于知识图谱的开放科学平台（数据库、搜索引擎、API）以帮助研究人员整合分析人类基因组/表观基因组/转录组/三维基因组数据
  • 开发生物信息学领域中的可解释人工智能算法