Resume

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

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教育经历

2010.08 - 2015.07
博士 军事医学科学院 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 军事医学科学院

所获奖励

2015
优秀博士论文 军事医学科学院

研究方向

  • 基因组、转录组、蛋白组等多组学数据整合分析、大数据及生物学网络模型构建。
  • 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（空间、时间变换）、物种进化过程中的变与不变。

业务能力

  • 具有坚实的计算机软硬件技术和语言、算法基础，完整地学习了分子生物学、遗传学、表观基因组学和系统生物学的理论知识和基础技能。擅长将生物学问题用信息学方法抽象表达，再利用计算机辅助建模计算、分析预测等。同时具有多年的高通量测序及基因组、转录组、蛋白组等多组学数据分析经验，熟悉从样本建库到测序后数据处理的各个环节，以及常用的数据库、生物信息学工具、算法等。
  • 熟练操作 Linux 系统，掌握 C++、Java、Perl、Python、R、Matlab 等语言，熟悉 MySQL数据库的基本使用与维护。
  • 良好的英文读写和听说能力，取得CET-6证书。
  • 具有踏实的工作态度、良好的团队精神和自我驱动能力。

文章成果

  1. 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.
  2. 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.
  3. 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.
  4. 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.
  5. 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.
  6. Tan Z1, Gao L1, Wang Y1, Yin H, Xi Y, Wu X, Shao Y, Qiu W, Du P, Shen W, Fu L, Jia R, Zhao C, Zhang Y, Zhao Z, Sun Z, Chen H, Hu X*, Xu J*, Wang Y*. PRSS contributes to cetuximab resistance in colorectal cancer. Sci Adv. 2020, 6(1):eaax5576.
  7. Ye B1, Shen W, Shi M, Zhang Y, Xu C*, Zhao Z*. Intein-mediated backbone cyclization of entolimod confers enhanced radioprotective activity in mouse models. PeerJ. 2018, 6.
  8. Li P1, Shi M, Shen W, Zhang Z, Xie D, Zhang X, He C, Zhang Y*, Zhao Z*. Coordinated regulation of IFITM1, 2 and 3 genes by an IFN-responsive enhancer through long-range chromatin interactions. Biochim Biophys Acta - Gene Regul Mech. 2017, 1860(8):885-893.
  9. Ye B1, Shen W, Wang D, Li P, Zhang Z, Shi M, Zhang Y, Zhang F*, Zhao Z*. ZNF143 is involved in CTCF-mediated chromatin interactions by cooperation with cohesin and other partners. Mol Biol. 2016, 50(3):431-437.
  10. Zhang Z1, Zhang Y, Shi M, Ye B, Shen W, Li P, Xing L, Zhang X, Hou L, Xu J*, Zhao Z*, Chen W*. Anthrax Susceptibility: Human Genetic Polymorphisms Modulating ANTXR2 Expression. Toxins. 2016, 8(1).
  11. Zhang Y1, Fan K1, Sun Q1,*, Chen A, Shen W, Zhao Z, Zheng X*, Yang X*. Functional screening for miRNAs targeting Smad4 identified miR-199a as a negative regulator of TGF-β signalling pathway. Nucleic Acids Res. 2012, 40(18):9286-9297.

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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, big data and biological network models.
  • Focus on the variation and conservation of genetic information from DNA sequences (1D, linear) to genome architecture (3D, multiplex) during the cell cycle (spatial, temporal) and evolution.

Skills

  • Excellent understanding of bioinformatics, human genomics and different genome sequencing platforms. More than 5 years' experience with omics data generated from next generation sequencing. Familiar with common databases and tools.
  • Good knowledge of C++, Jave, scripting languages (Perl, Python) and mathematics tools (R, Matlab). Basic knowledge of MySQL. Experience in system management in a Linux environment.
  • Fluent in reading, writing and speaking Chinese and English.
  • Excellent communication and interpersonal skills, team working and self-driven.

Publications

  1. 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.
  2. 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.
  3. 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.
  4. 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.
  5. 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.
  6. Tan Z1, Gao L1, Wang Y1, Yin H, Xi Y, Wu X, Shao Y, Qiu W, Du P, Shen W, Fu L, Jia R, Zhao C, Zhang Y, Zhao Z, Sun Z, Chen H, Hu X*, Xu J*, Wang Y*. PRSS contributes to cetuximab resistance in colorectal cancer. Sci Adv. 2020, 6(1):eaax5576.
  7. Ye B1, Shen W, Shi M, Zhang Y, Xu C*, Zhao Z*. Intein-mediated backbone cyclization of entolimod confers enhanced radioprotective activity in mouse models. PeerJ. 2018, 6.
  8. Li P1, Shi M, Shen W, Zhang Z, Xie D, Zhang X, He C, Zhang Y*, Zhao Z*. Coordinated regulation of IFITM1, 2 and 3 genes by an IFN-responsive enhancer through long-range chromatin interactions. Biochim Biophys Acta - Gene Regul Mech. 2017, 1860(8):885-893.
  9. Ye B1, Shen W, Wang D, Li P, Zhang Z, Shi M, Zhang Y, Zhang F*, Zhao Z*. ZNF143 is involved in CTCF-mediated chromatin interactions by cooperation with cohesin and other partners. Mol Biol. 2016, 50(3):431-437.
  10. Zhang Z1, Zhang Y, Shi M, Ye B, Shen W, Li P, Xing L, Zhang X, Hou L, Xu J*, Zhao Z*, Chen W*. Anthrax Susceptibility: Human Genetic Polymorphisms Modulating ANTXR2 Expression. Toxins. 2016, 8(1).
  11. Zhang Y1, Fan K1, Sun Q1,*, Chen A, Shen W, Zhao Z, Zheng X*, Yang X*. Functional screening for miRNAs targeting Smad4 identified miR-199a as a negative regulator of TGF-β signalling pathway. Nucleic Acids Res. 2012, 40(18):9286-9297.