Resume

Everything should be made as simple as possible, but not simpler. -- Einstein

教育经历

2010.08 - 2015.07
博士 军事医学研究院 生物信息学
2006.08 - 2010.07
学士 清华大学 计算机科学与技术

工作经历

2015.08 至今
助理研究员 军事医学研究院

所获奖励

2015
优秀博士论文 军事医学研究院

研究方向

  • 多组学数据联合分析及生物学网络模型构建。
  • 机器学习方法在生物学大数据中的应用。
  • 关注遗传信息从DNA序列（一维、线性）到基因组结构（三维、多元）及其在细胞周期、物种进化（空间、时间变换）过程中的变与不变。

基金项目

2020.01 - 2022.12
国家自然科学基金青年项目 25万
2018.01 - 2022.12
非公开 33.3万
2023.11 - 2026.10
非公开 100万

文章成果

  1. Ye B1, Shen W1, Li Y1, Wang D, Zhang Y, Li P, Yin M, Wang Y, Xie D, Shi S, Yao T, Chen J, Xu P*, Zhao Z*. FAIRE-MS reveals mitotic retention of transcriptional regulators on a proteome-wide scale. FASEB J. 2023, 37(2):e22724.
  2. Li P1, Ke Y1, Shen W1, Shi S, Wang Y, Lin K, Guo X, Wang C*, Zhang Y*, Zhao Z*. Targeted screening of genetic associations with COVID-19 susceptibility and severity. Front Genet. 2022, 13:1073880.
  3. Shen W1, Zhang Y1*, Shi M1, Ye B, Yin M, Li P, Shi S, Jin Y, Zhang Z, Zhang MQ, Chen Y*, Zhao Z*. Profiling and characterization of constitutive chromatin-enriched RNAs. iScience. 2022, 25(11):105349.
  4. Ye B1, Shen W1, Zhang C1, Yu M, Ding X, Yin M, Wang Y, Guo X, Bai G, Lin K, Shi S, Li P, Zhang Y, Yu G*, Zhao Z*. The role of ZNF143 overexpression in rat liver cell proliferation. BMC Genomics. 2022, 23(1):483.
  5. Wang Y1, Shen W1*, Yin M, Huang W, Ye B, Li P, Shi S, Bai G, Guo X, Jin Y, Lin K, Zhang Y, Jiang Y*, Wang J*, Han Y*, Zhao Z*. Changes in Higher-Order Chromosomal Structure of Klebsiella pneumoniae Under Simulated Microgravity. Front Microbiol. 2022, 13:879321.
  6. Yin M1, Ye B1, Jin Y, Liu L, Zhang Y, Li P, Wang Y, Li Y, Han Y, Shen W*, Zhao Z*. Changes in Vibrio natriegens Growth Under Simulated Microgravity. Front Microbiol. 2020, 11:2040.
  7. Ye B1, Shen W1, Zhao Z*. ZNF143 is dynamically bound to a subset of its interphase sites during mitosis. Biochem Biophys Res Commun. 2020, 523(2):293-298.
  8. Shen W1, Wang D, Ye B, Shi M, Ma L, Zhang Y*, Zhao Z*. GC3-biased gene domains in mammalian genomes. Bioinformatics. 2015, 31(19):3081-3084.
  9. Shen W1, Wang D, Ye B, Shi M, Zhang Y*, Zhao Z*. A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle. Biological Research. 2015, 48:27.
  10. Zhang Y1, Shen W1, Shi M1, Zhang L, Zhang Z, Li P, Xing L, Luo F, Sun Q*, Zheng X, Yang X*, Zhao Z*. Involvement of aberrant miR-139/Jun feedback loop in human gastric cancer. Biochim Biophys Acta - Mol Cell Res. 2015, 1853(2):481-488.

Education

2010.08 - 2015.07
PhD Academy of Military Medical Sciences. Bioinformatics
2006.08 - 2010.07
BSc Tsinghua University. Computer Science and Technology

Experience

2015.08 - Present
Assistant Researcher
Academy of Military Medical Sciences

Awards

2015
Excellent Doctor Degree Dissertation
Academy of Military Medical Sciences

Research Area

  • Integrated analysis of multi-omics data and construction of biological network models.
  • Application of machine learning methods in biological big data.
  • Focus on the variation and conservation of genetic information from DNA sequences (1D, linear) to genome architecture (3D, multiplex) during the cell cycle and evolution (spatial, temporal).

Funds

2020.01 - 2022.12
Young Scientists Fund of the National Natural Science Foundation of China 250K CNY
2018.01 - 2022.12
Non-public 333K CNY
2023.11 - 2026.10
Non-public 1M CNY

Publications

  1. Ye B1, Shen W1, Li Y1, Wang D, Zhang Y, Li P, Yin M, Wang Y, Xie D, Shi S, Yao T, Chen J, Xu P*, Zhao Z*. FAIRE-MS reveals mitotic retention of transcriptional regulators on a proteome-wide scale. FASEB J. 2023, 37(2):e22724.
  2. Li P1, Ke Y1, Shen W1, Shi S, Wang Y, Lin K, Guo X, Wang C*, Zhang Y*, Zhao Z*. Targeted screening of genetic associations with COVID-19 susceptibility and severity. Front Genet. 2022, 13:1073880.
  3. Shen W1, Zhang Y1*, Shi M1, Ye B, Yin M, Li P, Shi S, Jin Y, Zhang Z, Zhang MQ, Chen Y*, Zhao Z*. Profiling and characterization of constitutive chromatin-enriched RNAs. iScience. 2022, 25(11):105349.
  4. Ye B1, Shen W1, Zhang C1, Yu M, Ding X, Yin M, Wang Y, Guo X, Bai G, Lin K, Shi S, Li P, Zhang Y, Yu G*, Zhao Z*. The role of ZNF143 overexpression in rat liver cell proliferation. BMC Genomics. 2022, 23(1):483.
  5. Wang Y1, Shen W1*, Yin M, Huang W, Ye B, Li P, Shi S, Bai G, Guo X, Jin Y, Lin K, Zhang Y, Jiang Y*, Wang J*, Han Y*, Zhao Z*. Changes in Higher-Order Chromosomal Structure of Klebsiella pneumoniae Under Simulated Microgravity. Front Microbiol. 2022, 13:879321.
  6. Yin M1, Ye B1, Jin Y, Liu L, Zhang Y, Li P, Wang Y, Li Y, Han Y, Shen W*, Zhao Z*. Changes in Vibrio natriegens Growth Under Simulated Microgravity. Front Microbiol. 2020, 11:2040.
  7. Ye B1, Shen W1, Zhao Z*. ZNF143 is dynamically bound to a subset of its interphase sites during mitosis. Biochem Biophys Res Commun. 2020, 523(2):293-298.
  8. Shen W1, Wang D, Ye B, Shi M, Ma L, Zhang Y*, Zhao Z*. GC3-biased gene domains in mammalian genomes. Bioinformatics. 2015, 31(19):3081-3084.
  9. Shen W1, Wang D, Ye B, Shi M, Zhang Y*, Zhao Z*. A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle. Biological Research. 2015, 48:27.
  10. Zhang Y1, Shen W1, Shi M1, Zhang L, Zhang Z, Li P, Xing L, Luo F, Sun Q*, Zheng X, Yang X*, Zhao Z*. Involvement of aberrant miR-139/Jun feedback loop in human gastric cancer. Biochim Biophys Acta - Mol Cell Res. 2015, 1853(2):481-488.