师资力量

本人2011年毕业于复旦大学生物信息学专业，获博士学位，并从事博士后研究。后于2014年加入中国科学院计算生物学研究所，从事肿瘤表观遗传方向研究。2018年起加入复旦大学任青年副研究员。目前主要从事肿瘤多组学领域研究。研究方向包括DNA甲基化相关的表观遗传调控，非编码RNA调控网络构建，微生物宏基因组学，以及癌症多组学数据整合挖掘等。目前在JAMA oncology, Nature Communications, Genome Biology, Nucleic Acids Research, EBioMedicine, Trends in Genetics，BMC Genomic等杂志发表论文20余篇。曾担任中国科学院青年创新促进会会员，获赛诺菲—中国科学院上海生命科学研究院优秀青年人才奖励基金，国家自然科学基金重大研究计划等多项资助。

教育经历

工作经历

主持项目

◎ 中国博士后科学基金第53批面上资助（ID：2013M530178，一等，8.0万元）

◎ 国家自然科学基金青年基金项目: 基于转录组水平的microRNA对外界环境扰动拮抗效应研究（批准号：31401120，2015-2018，24万元）

◎ 中国科学院青年创新促进会会员资助:（编号：2016252，2016-2020，80万元）

◎ 赛诺菲—中国科学院上海生命科学研究院优秀青年人才奖励基金（2017）

◎ 国家自然科学基金重大研究计划: 整合多组学数据的乳腺癌肿瘤微环境解析算法研究（批准号：91959106，2020-2022，80万元）

◎ 上海市教委人工智能促进科研范式改革赋能学科跃升计划：基于深度学习的非编码RNA肿瘤靶向药物敏感性预测模型研究（批准号：24RGZNC02，2024-2025, 20万元）

代表性论文

◎ Shaoying Zhu, Hui Yang Jun Liu, Qingsheng Fu, Wei Huang, Qi Chen, Andrew E. Teschendorff, Yungang He, Zhen Yang*, An improved reference library and method for accurate cell-type deconvolution of bulk-tissue miRNA data. Nature Communications (Accepted)

◎ Zhen Yang^#*, Xiaocen Liu^#, Hao Xu^#, Andrew E Teschendorff, Lingjie Xu, Jingyi Li, Minjie Fu, Jun Liu, Hanyu Zhou, Yingying Wang, Licheng Zhang, Yungang He, Kun Lv*, Hui Yang*. Integrative analysis of genomic and epigenomic regulation reveals miRNA mediated tumor heterogeneity and immune evasion in lower grade glioma. Communications Biology. 2024 Jul 6;7(1):824.

◎ Zhen Yang*, Feng Xu, Andrew E. Teschendorff, Yi Zhao, Lei Yao, Jian Li, Yungang He. Insights into the role of long non-coding RNAs in DNA methylation mediated transcriptional regulation. Frontiers in Molecular Biosciences, 2022, 9: 1067406

◎ Feng Xu, Yifan Wang, Yunchao Ling, Chenfen Zhou, Haizhou Wang, Andrew E Teschendorff, Yi Zhao, Haitao Zhao, Yungang He*, Guoqing Zhang*, Zhen Yang*. dbDEMC 3.0: Functional exploration of differentially expressed miRNAs in cancers of human and model organisms. Genomics Proteomics Bioinformatics. 2022 May 25;S1672-0229(22)00068-7.

◎ Zhen Yang, Feng Xu, Aijuan Xue, Hong Lv, Yungang He*. Degree of Freedom of Gene Expression in Saccharomyces cerevisiae. Microbiology Spectrum. 2022 Apr 27;10(2):e0083821.

◎ Zhen Yang, Feng Xu, Hongdou Li, Yungang He*. Beyond samples: A metric revealing more connections of gut microbiota between individuals. Computational and Structural Biotechnology Journal. 2021 Jul 10;19:3930-3937.

◎ Zhen Yang*, Feng Xu, Haizhou Wang, Andrew E Teschendorff, Feng Xie, Yungang He*. Pan-cancer characterization of long non-coding RNA and DNA methylation mediated transcriptional dysregulation. EBioMedicine. 2021 Jun;68:103399.

◎ Xue Bai#, Xiaobo Yang#, Liangcai Wu#, Bangyou Zuo, Jianzhen Lin, Shanshan Wang, Jin Bian, Xinting Sang, Yungang He, Zhen Yang*, Haitao Zhao*. CMTTdb: the cancer molecular targeted therapy database. Annals of Translational Medicine, 2019 Nov;7(22):667.

◎ Zhenyu Bao#, Zhen Yang#, Zhou Huang, Yiran Zhou, Qinghua Cui*, Dong Dong*. LncRNADisease 2.0: an updated database of long non-coding RNA-associated diseases. Nucleic Acids Research. 2019 Jan 8;47(D1):D1034-D1037.

◎ Zhen Yang^#, Liangcai Wu#, Anqiang Wang#, Wei Tang, Yi Zhao, Haitao Zhao*, Andrew E. Teschendorff*. dbDEMC 2.0: updated database of differentially expressed miRNAs in human cancers. Nucleic Acids Research. 2017 Jan 4;45(D1):D812-D818.

◎ Zhen Yang, Andrew Wong, Diana Kuh, Dirk S. Paul, Vardhman K. Rakyan, R. David Leslie, Shijie C. Zheng, Martin Widschwendter, Stephan Beck, Andrew E. Teschendorff*. Correlation of an epigenetic mitotic clock with cancer risk. Genome Biology. 2016 Oct 3;17(1):205.

◎ Zhen Yang, Allison Jones, Martin Widschwendter, Andrew E. Teschendorff*. An integrative pan-cancer-wide analysis of epigenetic enzymes reveals universal patterns of epigenomic deregulation in cancer. Genome Biology. 2015 Jul 14;16:140.

◎ Andrew Teschendorff#, Zhen Yang#, Andrew Wong, Christodoulos P Pipinikas, Yinming Jiao, Allison Jones, Shahzia Anjum, Rebecca Hardy, Helga B Salvesen, Christina Thirlwell, Samuel M Janes, Diana Kuh, Martin Widschwendter*. Correlation of Smoking-Associated DNA Methylation Changes in Buccal Cells With DNA Methylation Changes in Epithelial Cancer. JAMA Oncology. 2015 Jul;1(4):476-85.