李亦学,上海生物信息技术研究中心主任 中国科学院上海生命科学研究院研究员
1982年在新疆大学物理系获学士学位，1987年在新疆大学物理系获理论物理硕士学位（就读于西北大学物理系、西安交通大学信息控制系生物医学仪器研究所）。1992年赴德国海德堡大学理论物理研究所进修，1993年4 月转为博士生，1996年10月在德国海德堡大学理论物理研究所获理论物理博士学位。 1996年11月至1997年3月在德国斯图加特大学第三计算机应用研究所从事计算数学博士后研究。1997年4月至2000年6月在欧洲分子生物学研究室（EMBL）从事生物物理博士后研究。2000年7月回国工作。
李亦学研究员的研究兴趣包括生物信息学、系统生物学、计算生物学等。他已在各种杂志上发表60多篇文章，包括40多篇在多种SCI杂志上发表的学术论文，其研究成果已被世界各地的研究人员引用200多次。他是中国自然科学基金、国家863高科技发展计划、国家重大基础研究973计划等多个国家级学术组织或机构的评委，以及5种杂志（其中3种为SCI收录）的编委。同时，他还组织了多次国际学术会议或研讨班，是诸多国内外主要学术会议，如GIW、 HUPO和全国生物信息学大会的组委会成员。他受邀在世界各地的学术会议或大学发表了40 余次主旨讲话或学术报告。李亦学研究员现为上海生物信息学会理事长。
发表的主要文章包括:
2006
1. Guohui Ding, Jiuhong Kang, Qi Liu, Tieliu Shi, Gang Pei, and Yixue Li*, Insights into the coupling of duplication events and macroevolution from an age distribution of animal transmembrane gene families, Plos Computational Biology, 2006, Vol. 2, issue 8, e102.
2. Ziliang Qian, Yudong Cai, Yixue Li*, Automatic Transcription Factor Classifier based on Functional Domain Composition, BBRC. 2006 Aug 18;347(1):141-4.
3. PL Jia, TL Shi*, YD Cai*.and YX Li*, Demonstration of two novel methods for predicting functional siRNA efficiency, BMC Bioinformatics, 2006,7:271, doi:10.1186/471-2105-7-271.
4. Ziliang Qian，Yanbin Yin，Yong Zhang, Lingyi Lu,Yixue Li and Ying Jiang，Genomic characterization of ribitol teichoic acid synthesis in Staphylococcus aureus: genes, genomic organization and gene duplication, BMC Genomics, 2006, 7: 74.
5. Wu Wei, Ziwei Cao, …,Yixue Li*，The path from commensalism to pathogenicity: comparative phylogenetic profiles of Staphylococcus epidermidis RP62A and ATCC12228, BMC Genomics，2006, 7:112，doi:10.1186/1471-2164-7-112.
6. Xiaojing Yu, …, Yixue Li*, 2006, Classification of protein quaternary structure by functional domain composition, BMC Bioinformatics, 2006, 7:187.
7. Yuanyuan Li, …, Yixue Li*, "In silico discovery of human natural antisense transcripts", BMC Bioinformatics. 2006, 13;7:18.
8. Sujun Li, …, Yixue Li*, Predict O-Glycosylation sites in mammalian protein using SVMs based on PSSMs and Physical-Chemical properties, Comput Biol Chem. 2006, 30(3): 203-208.
9. Ruoyu Luo, …, Yixue Li, Qingming Luo, ?FluxExplorer: a general platform for modeling and analyses of metabolic networks based on stoichiometry. Chinese Science Bulletin, 2006, V. 51, Number 6, p: 689 – 696.
10. Kang Tu, …, Yixue Li*, Combining Gene Expression Profiles and Protein-Protein Interaction data to infer Gene Functions Bioinformatics: microarray analysis & PPI network analysis, Journal of Biotechnology, 2006, 124,475-485.
11. Rong Li, …, Yixue Li*, A Measure of Semantic Similarity between Gene Ontology Terms Based on Semantic Pathway Covering, Progress in Natural Science, 2006, V. 16, 7,? p:721-726.
12. Yu X, Cao J, Cai Y, Shi T, Yixue Li*. Predicting rRNA-, RNA-, and DNA-binding proteins from primary structure with support vector machines. J Theor. Biol. 2006, 21;240(2):175-84.
13. Zhuo Wang, Xin-Guang Zhu, …, Yuanyuan Li, Yixue Li*(Co-correspondent author), Lei Liu*, 2006, Exploring photosynthesis evolution by comparative analysis of metabolic networks between chloroplasts and photosynthetic bacteria, BMC Genomics., 2006, 7:100, doi: 10.1186/1471-2164-7-100.
14. Ruoyu Luo, Sha Liao, Guanyang Tao, Yuanyuan Li, Yixue Li*, Qingming Luo*. 2006, Dynamic analysis of optimality in myocardial metabolic network under normal and ischemic conditions, Molecular Systems Biology, 2006, 2:2006.0031.
15. Yuan-Yuan Li, Hui Yu, Zong-Ming Guo, Ting-Qing Guo, Kang Tu, Wei Lin, Yi-Xue Li*, 2006, Systematic analysis of head-to-head gene organization: evolutionary conservation and potential biological relevance, Plos Computational Biology, 2006, Vol. 2, issue 7, e74.
16. Guo-qing Zhang, Zhi-wei Cao, Qing-ming Luoa, Yu-Dong Cai, Yixue Li*(correspondent author)，Operon prediction based on SVM，Comput Biol Chem, 2006, 30, 233-240.
17. Zhuo FANG, Lei LIU, Jiong YANG, Qing-Ming LUO*, Yi-Xue LI*, 2006, Comparisons of Graph-structure Clustering Methods for Gene Expression Data, 2006, ACTA BIOCHMICA et BIOPHYSICA SINICA. Volume 38, p-379.
18. Wu Wei, Guohui Ding, Xiaojing Wang, Jingchun Sun, Kang Tu, Pei Hao, Chuan Wang, Yi Zhong, Zhiwei Cao*, Tieliu Shi*, Yixue Li*， 2006， Comparative analysis of whole-genome sequences of Streptococcus suis， Chinese Science Bulletin, 2006, V. 51, 10, p:1199 –1209.
19. Lili Wang, Zhong Yang, …, Yixue Li*, Wei Hu*, Reconstruction and in silico analysis of MAPK signalling pathways in the human blood fluke, Schistosoma japonicum, 2006, FEBS Letters 580, 3677-3686.
20. Zhuo Fang, Jiong Yang, Yixue Li, Qingming Luo and Lei Liu*, Knowledge guided analysis of microarray data, J Biomed Inform, 2006, Volume 39, Issue 4, p:401-411.
21. Sun J-Ch, Xu J-L, Cao J-P, Liu Q, Guo X-K, Shi T-L*, Li Y-X*(Correspondent author) Systematic study on predicted protein-protein interaction networks of Leptospira interrogans, Chinese Sci. Bull. 2006, Vol.51(11):1296-1305.
22. Jing Zhao, Hong Yu, Jianhua Luo, Z.W Cao, Yi-Xue Li*, Complex networks theory for analyzing metabolic networks, Chinese Science Bulletin 2006 Vol. 51 No. 13 1529-1537.
2005
1. Lu Q, Hao P, Curcin V, He W, Li YY, Luo QM, Guo YK, Li YX. KDE Bioscience: Platform for bioinformatics analysis workflows. J Biomed Inform. 2005 Oct 11.
2. Pei Hao, …, Yixue Li*, 2005, Cross-host evolution of SARS coronavirus in palm civet and human, PNAS. 102(7)，2430–2435.
3. Jingchun Sun, …, Yixue Li*, Refined phylogenetic profiles method for predicting protein-protein interactions, Bioinformatics, 2005 Aug 15;21(16):3409-15.
4. Pei Hao, …, Yixue Li*, 2005,“MPSS: an integrated database system for surveying a set of proteins”，Bioinformatics. Vol. 21 no. 9, 2142–2143.
5. Lu W, Wu XD, …, ?Li YX, …, Pei G, Wu JR, Sun B, et al., 2005, Synthetic peptides derived from SARS coronavirus S protein with diagnostic and therapeutic potential. FEBS Lett. Apr 11;579(10):2130-6.
2004
1. Pei Hao, ……, Yixue Li, ……, Guoping Zhao, et.al., 2004, ‘Molecular evolution of the SARS-coronavirus during the course of the SARS epidemic in China’, Science, 12 March 2004; 303: 1666-1669.
2. Henning Hermjakob，…, Yixue Li, …, Chris Hogue & Rolf Apweiler, 2004, The HUPO PSI's Molecular Interaction format—a community standard for the representation of protein interaction data, Nature Biotechnology,22，pp177–183.
3. Lijian Hui,……,Yixue Li *，et al., 2004, “Identification of Alternatively Spliced mRNA Variants Related to Cancers by Genome-wide ESTs Alignment.”, Oncogene，1-11.
4. Jiang XS, Zhou H, Zhang L, Sheng QH, Li SJ, Li L, Hao P, Li YX, Xia QC, Wu JR, Zeng R, 2004, A High-throughput approach for subcellular proteome: Identification of rat liver proteins using subcellular fractionation coupled with two-dimensional liquid chromatography tandem mass spectrometry and bioinformatic analysis. Mol Cell Proteomics. Jan 22.
5. Cheng Luo, …, Yixue Li, Xu She, and Hualiang Jiang, 2004, Nucleocapsid protein of SARS coronavirus tightly binds to human cyclophilin A, Biochem Biophys Res Commun. Aug 27;321(3):557-65.
6. Deng X, Qiu L, Yixue L*, 2004, Scoring hidden Markov models to discriminate beta-barrel membrane proteins. Comput Biol Chem, ?Jul;28(3):189-94.
7. Shun-Liang CAO,…, Yi-Xue Li*, 2004, Semantic Search among Heterogeneous Biological Databases Based on Gene Ontology, Acta Biochim et Biophysica Sinica, 36(5):365-370.
8. Jian-Ping Yuan, …, Yi-Xue Li and Xiao-Kui Guo, 2004, Analysis of gene expression profile in gastric cancer cells stimulated with Helcobacter pylori isogenic strains. J. Medical Microbiology, 53, 1-10.
9. Xiaojing Yu, …, Yixue Li*, 2004, A Novel Domain-based Method to Predict the Functional Classes of Proteins, Chinese Science Bulletin, Vol. 49 No. 22 2379-2384.
10. Wang Z, Chen Y, Li Y*, 2004, A brief review of computational gene prediction methods. Genomics Proteomics Bioinformatics, ?Nov;2 (4):216-21.
11. Guang-Yong ZHENG, Sheng-Cai WEI, Tie-Liu SHI, and Yi-Xue Li*,2004, Association between Alcohol, Smoking and HLA-DQA1*0201 Genotype in Psoriasis,? Acta Biochim Biophys Sin, 36(9): 597–602.
12. Deng, Yong, Liu Qi, Li Yi-Xue*, “Prediction of transmembrane segments based on fuzzy cluster analysis of amino acids”, ACTA CHIMICA SINICA , 2004, 62 (19): 1968-1972.
2003
1. Ying LIN , Yixue Li*,…, Bing SUN, 2003, Identification of an epitope of SARS-Coronavirus nucleocapsid protein, Cell Research, Vol.13 No.3, 141-147.
2. Liu Q, Zhu Y, Wang B, Yixue L*, 2003, Identification of beta-barrel membrane proteins based on amino acid composition properties and predicted secondary structure. Comput Biol Chem. Jul;27(3):355-61.
3. Liu Q, Zhu YS, Wang BH, Li YX*, et al, 2003, A HMM-based method to predict the transmembrane regions of beta-barrel membrane proteins. Comput Biol Chem. Feb;27(1):69-76.
4. Yixue Li*,et al, 2003, “TSSOM: Transmembrane Segments Prediction By Self-Organizing Map, Chinese journal of electronics
5. Yixue Li*，et al., Identification of probable genomic packaging signal sequence from SARS-CoV genome by bioinformatics analysis, ACTA PHARMACOLOGICA SINICA, 2003, Volume 24, Number 6，489-496.
6. Yixue Li*，et al., ?2003, A 3D model of SARS_CoV 3CL proteinase and its inhibitors design by virtual screening, ACTA PHARMACOLOGICA SINICA, ?June, Volume 24, Number 6，497-504.
7. Yixue Li*， et al., 2003, Small envelope protein E of SARS: cloning, expression, purification, CD determination, and bioinformatics analysis, ACTA PHARMACOLOGICA SINICA， June Volume 24, Number 6，505-511.
8. LIN Jian-Cheng, XU Jin-Lin, LUO Jian-Hua, LI Yi-Xue*,2003, Prediction of Prokaryotic Promoters Based on Prediction of Transcriptional Units, Acta Biochim et Biophysica Sinica, 35(4):317-324.
9. Yixue Li*，et al., 2003, Putative hAPN receptor binding sites in SARS_CoV spike protein, ACTA PHARMACOLOGICA SINICA，June, Volume 24, Number 6，481-488.
10. SHEN Wei, WANG Li, GAO Hong, LI Yi-xue and ZHONG Yang. 2003, A preliminary phylogenetic analysis of 14 coding sequences from SARS virus and other coronaviruses. J Genet Mol Bio. 14: 90-94.
2002
1. Yixue Li*, et al, 2002. “Performance Analysis of Methods that Predict Transmembrane Regions”, ACTA BIOCHMICA et BIOPHYSICA SINICA, 34(3):285-290.
2. Yu-Dong Cai, Yixue Li et al., 2002, Prediction Protein Structural Classes by a neural network Method. Internet Electronic Journal of Molecular Design. Vol. 1, No. 7, 332-338.
3. Yixue Li*,et al, 2002, “Constructionof a Proteomic Map Database”， ACTA BIOCHMICA et BIOPHYSICA SINICA, 34(2):209-214.
2001
1. Yixue Li*,et al, 2001, An improved algorithm for transmembrane protein prediction：The Sixth International conference for Yonger Computer Scientists, 485-488.
2. Yixue Li*, et al, 2001, Research on several prediction methods of membrane protein structure and topology, High Technology Letters, 3:1-4.
2000
* Yu-Dong Cai, Yixue Li, Kuo-Chen Chou. 2000. Using neural networks for prediction of domain structural classes. Biochimica et Biophsica Acta. 1476, 1-2.
* Yixue Li *, C. Schwager, W. Ansorge, 2000, “Using Neural Network for Lane-Tracking of DNA Sequencing? Slab Gels”. Journal of Biochemical and Biophysical Method, 45，65-74.
