教授

刘雷

刘雷(1966年3月5日生),教授,博导


个人简历:

       现任复旦大学生物医学研究院PI,上海生物信息技术研究中心副主任,国际计算生物学学会会员,美国医学信息学会会员,中国医药生物技术协会生物医学信息技术分会常务委员,中国医药生物技术协会组织生物样本库分会常务委员,中国医药信息学会电子病历与电子健康档案专业委员会专家委员。1997年毕业于美国康涅狄格大学,获细胞生物学博士学位。毕业后在美国康涅狄格大学计算机系继续博士后工作。1999年受聘于美国伊利诺伊大学组建生物信息学实验室,并担任第一任主任。2007年回国,入选中国科学院“百人计划”和上海市“浦江人才计划”。2013年受聘于复旦大学。承担和参与了多项国家和地方重大科学研究计划。“十一五”期间,主持国家863项目“建立基于临床医疗信息共享平台的医疗决策支持系统”,总经费480万;参与国家863项目“重大疾病分子分型信息化平台建设”、国家传染病重大专项课题“病毒性肝炎相关肝癌样本库及其相关共享数据库的建设及维护”课题等。“十二五”起始,在国家 “数字化医疗”项目中承担“医学知识库与临床决策支持”课题,总经费约1295万、参与国家传染病重大专项和新药创制重大专项课题等。主要研究领域:生物医学信息学,在组学数据的分析与挖掘,生物网络的构建与分析,生物系统的建模与模拟,生物医学大数据共享、整合与挖掘,临床决策支持,个性化医疗等方面做了大量工作,研发了一系列医疗卫生软件系统,在《Bioinformatics》、《PLoS Computational Biology》、《Nucleic Acid Research》《Journalof Biomedical informatics》等生物医学信息领域有较大影响的学术刊物发表SCI论文60余篇,共同主编了《中国医疗卫生信息化进展》一书。取得软件著作权20余项,申请专利6项。


研究方向:
1. Computation modeling of biological Systems
2. Integration and analysis of multiple types of omics data
3. Data mining of clinical data and natural language processing
4. Biomedical knowledge base and clinical decision support


代表性论文:
1. Hui Wang, Weide Zhang, Qiang Zeng, Zuofeng Li, ,Kaiyan Feng, Lei Liu*, Extracting important information from Chinese Operation Notes with natural language processing methods, Journal of Biomedical Informatics(Received 4 January 2013; accepted 13 December 2013. published online 19 February 2014). 
2. Juanjuan Xiao, Ying Wang, Zuofeng Li; Xufeng Zhang, Kaiyan Feng, Lei Liu*, Assessing the Gender Differences of Adverse Effects in HIV Infection Treatment Based on FDA AERS Database, Current Bioinformatics, 2013.5(8):583-590(8).
3. Bi-Qing Li, Hui Yu, Zheng Wang, Guohui Ding, Lei Liu*, MicroRNA mediated network and DNA Methylation in Colorectal Cancer, Protein Peptide Letter, 2013,3(20):1-12
4. Rudong Li and Lei Liu*. Characterizing criticality of proteins by systems dynamics: Escherichia coli central carbon metabolism as a working example. BMC Systems Biology, 2012,S11.
5. Bi-Qing Li, Tao Huang, Lei Liu*, Yu-Dong Cai*, Kuo-Chen Chou. Identification of Colorectal Cancer Related Genes with mRMR and Shortest Path in Protein-Protein Interaction Network. PLoS One, 2012,7(4):e33393
6. Zuofeng Li, Xingnan Liu, Jingran Wen, Ye Xu, Xin Zhao, Xuan Li, Lei Liu,*, and Xiaoyan Zhang* DRUMS: A Human Disease Related Unique Gene Mutation Search Engine. HUMAN MUTATION, 2011, 32:E2259-E2265 
7. Rudong Li, Yuanyuan Li, Ling-Yi Lu, Cong Ren, Yi-Xue Li, Lei Liu*. An improved kinetic model for the acetone-butanol-ethanol pathway of Clostridium acetobutylicum and model-based perturbation analysis. BMC Systems Biology, 2011, 5(Suppl.): S12.
8. Lele Hu, Lulu Zheng, Zhiwen Wang, Bing Li, Lei Liu*. Using Pseudo Amino Acid Composition to Predict Protease Families by Incorporating a Series of Protein Biological Features. Protein & Peptide Letters, 2011, 18(6):552-558.
9. Peng Jia, Liming Xuan, Lei Liu*, Chaochun Wei*. MetaBinG: Using GPUs to accelerate metagenomic sequence classification. PLoS One, 2011, 6(11):e25353. 
10. The role of Hepatitis C Virus in the dynamic protein interaction networks of hepatocellular cirrhosis and carcinoma, Tao Huang, Lei Liu, Qi Liu, Guohui Ding, Yejun Tan, Zhidong Tu, Yixue Li, *Hongyue Dai, *Lu Xie, International Journal of Computational Biology and Drug Design, Inderscience, 4(1), pp 5-17,  2011.

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