研究生教育

陈铭，男，汉族，1972年11月生，浙江乐清人，德国比勒费尔德大学生物信息学专业毕业，理学博士学位。浙江大学生命科学学院教授，浙江大学生物信息学学科带头人；担任浙江省生物信息学学会理事长；中国系统仿真学会生命系统建模仿真专业委员会副主任委员、中国运筹学会计算系统生物学分会理事会常务理事、中国细胞生物学学会功能基因组信息学与系统生物学分会理事、中国医药生物技术协会生物医学信息技术分会委员会委员。

研究与成果：从事生物信息学及系统生物学方面的研究，近年来在基于高通量基因组、转录组、蛋白质组和反应组等组学大数据整合与挖掘，非编码RNA生物信息学研究、生物网络建模分析方面开展研究工作，取得了一系列成果。近十年来在Nucleic Acids Research、Bioinformatics、Briefings in Bioinformatics等期刊上发表近百篇SCI论文（个人H指数38）。

主要在研基金项目：

1.国家重点研发计划“蛋白质机器与生命过程调控”重点专项第四课题（2016YFA0501704）“蛋白-蛋白互作网络构建、动态特征分析及应用”（负责），2016-2021。

2.国家自然科学基金项目（31771477）：植物非编码RNA多层级调控网络的构建与分析（主持），2018-2021。

代表性论文：

[1] Xianwen Meng, Qi Chen, Peijing Zhang, Ming Chen* (2017) CircPro: an integrated tool for the identification of circRNAs with protein-coding potential Bioinformatics, 33(20): 3314–3316.

[2] Chunhui Yuan, Xianwen Meng, Xue Li, Nicola Illing, Robert Ingle, Jingjing Wang, Ming Chen* (2017) PceRBase: A database of plant competing endogenous RNA Nucleic Acids Research, 45 (D1): D1009-D1014.

[3] Lili Liu, Zijun Zhang, Taotao Sheng, Ming Chen* (2017) DEF: An automated dead-end filling approach based on quasi-endosymbiosis Bioinformatics, 33(3): 405-413.

[4] Xianwen Meng, Xue Li, Peijing Zhang, Jingjing Wang, Yincong Zhou, Ming Chen* (2017) Circular RNA: an emerging key player in RNA world Briefings in Bioinformatics, 18(4): 547-557.

[5] Xiaozhuan Dai, Youhuang Bai, Andrew Harrison, Ming Chen* (2016) Towards a next-generation atlas of RNA secondary structure Briefings in Bioinformatics, 17(1): 63-77.

[6] Zhao Zhang, Li Jiang, Jingjing Wang, Peizhen Gu, Ming Chen* (2015) MTide: an integrated tool for the identification of miRNA-target interaction in plants Bioinformatics, 31(2): 290-291.

[7] Dijun Chen, Liang-Yu Fu, Zhao Zhang, Guoliang Li, Hang Zhang, Li Jiang, Andrew Harrison, Hugh Shanahan, Christian Klukas,; Hong-Yu Zhang, Yijun Ruan, Ling-ling Chen, Ming Chen* (2014) Dissecting the chromatin interactome of microRNA genes Nucleic Acids Research, 42(5): 3028-3043.

[8] Chaogang Shao, Ming Chen*, Yijun Meng* (2013) A reverse framework for the identification of microRNA—target pairs in plants Briefings in Bioinformatics, 14(3): 293-301.

[9] Dijun Chen, Chun-hui Yuan, Jian Zhang, Zhao Zhang, Lin Bai, Yijun Meng, Ling-ling Chen, Ming Chen* (2012) PlantNATsDB: a comprehensive database of plant natural antisense transcripts Nucleic Acids Research, 40(1): D1187-D1193.

[10] Donglin Huang, Yiling Huang, Youhuang Bai, Dijun Chen, Ralf Hofestaedt, Christian Klukas, Ming Chen* (2011) MyBioNet: interactively visualize, edit and merge biological networks on the Web Bioinformatics, 27(23): 3321-3322.

[11] Yijun Meng, Chaogang Shao, Lingfeng Gou, Yongfeng Jin, Ming Chen* (2011)
Construction of MicroRNA- and MicroRNA*-mediated Regulatory Networks in Plants RNA Biology, 8(6): 1124-1148.

[12] Yijun Meng; Chaogang Shao; Ming Chen* (2011) Toward microRNA-mediated gene regulatory networks in plants Briefings in Bioinformatics, 12(6): 645-659.

[13] Dijun Chen, Yijun Meng, Chunhui Yuan, Lin Bai, Donglin Huang, Shaolei Lv, Ping Wu, Lingling Chen, Ming Chen* (2011) Plant siRNAs from introns mediate DNA methylation of host genes RNA, 17: 1012-1024.

[14] Yijun Meng, Lingfeng Gou, Dijun Chen, Chuanzao Mao, Yongfeng Jin, Ping Wu, Ming Chen* (2011) PmiRKB: a plant microRNA knowledge base Nucleic Acids Research, 39(1): D181-D187.

[15] Dijun Chen, Yijun Meng, Xiaoxia Ma, Chuanzao Mao, Youhuang Bai, Junjie Cao, Haibin Gu, Ping Wu, Ming Chen* (2010) Small RNAs in angiosperms: sequence characteristics, distribution, and generation Bioinformatics, 26(11): 1391-1394

[16] Ming Chen, Yijun Meng, Chuanzao Mao, Dijun Chen, Ping Wu (2010) Methodological framework for functional characterization of plant microRNAs Journal of Experimental Botany, 61(9): 2271-2280.

[17] Xiaohui Chen, Ming Chen*, Kaida Ning (2006) BNArray: An R package for constructing gene regulatory networks from microarray data by using Bayesian network Bioinformatics, 22: 2952-2954.

[18]  Ming Chen, Ralf Hofestaedt (2006) A Medical Bioinformatics Approach for Metabolic Disorders: Biomedical Data Prediction, Modeling and Systematic Analysis Journal of Biomedical Informatics, 39(2): 147-159.

[19] Ming Chen, Susana Lin and Ralf Hofestaedt (2004) STCDB: Signal ransduction Classification Database Nucleic Acids Research, 32(1), D456-D458.

[20] Ming Chen and Ralf Hofestaedt (2003) Quantitative Petri net model of gene regulated metabolic networks in the cell. In Silico Biology, 3(3), 347-365.

招生信息：生物信息学、生物学或计算机科学专业硕士、博士