科研成果
  • atpid Cui, J., P. Li, et al. (2008). "AtPID: Arabidopsis thaliana protein interactome database--an integrative platform for plant systems biology." Nucleic Acids Res 36(Database issue): D999-1008.
  • EPGD Ding, G., Y. Sun, et al. (2008). "EPGD: a comprehensive web resource for integrating and displaying eukaryotic paralog/paralogon information." Nucleic Acids Res 36(Database issue): D255-262.
  • GEOGLE Li, Y., P. Hao, et al. (2008). "Gene expression module-based chemical function similarity search." Nucleic Acids Res 36(20): e137.
  • SysZNF Ding, G., P. Lorenz, et al. (2009). "SysZNF: the C2H2 zinc finger gene database." Nucleic Acids Res 37(Database issue): D267-273.
  • bodyfluid Li, S. J., M. Peng, et al. (2009). "Sys-BodyFluid: a systematical database for human body fluid proteome research." Nucleic Acids Res 37(Database issue): D907-912.
  • weblab Liu, X., J. Wu, et al. (2009). "WebLab: a data-centric, knowledge-sharing bioinformatic platform." Nucleic Acids Res 37(Web Server issue): W33-39.
  • SEPPA Sun, J., D. Wu, et al. (2009). "SEPPA: a computational server for spatial epitope prediction of protein antigens." Nucleic Acids Res 37(Web Server issue): W612-616.
  • PIMP Xi, H., J. Park, et al. (2009). "SysPIMP: the web-based systematical platform for identifying human disease-related mutated sequences from mass spectrometry." Nucleic Acids Res 37(Database issue): D913-920.
  • dbDEPC Li, H., Y. He, et al. (2010). "dbDEPC: a database of differentially expressed proteins in human cancers." Nucleic Acids Res 38(Database issue): D658-664.
  • ASD Huang, Z., L. Zhu, et al. (2011). "ASD: a comprehensive database of allosteric proteins and modulators." Nucleic Acids Res 39(Database issue): D663-669.
  • AHD Jiang, Z., X. Liu, et al. (2011). "AHD2.0: an update version of Arabidopsis Hormone Database for plant systematic studies." Nucleic Acids Res 39(Database issue): D1123-1129.
  • eplant Liu, X., Z. Li, et al. (2011). "LSD: a leaf senescence database." Nucleic Acids Res 39(Database issue): D1103-1107.
  • HIT Ye, H., L. Ye, et al. (2011). "HIT: linking herbal active ingredients to targets." Nucleic Acids Res 39(Database issue): D1055-1059.
  • plantTFDB Zhang, H., J. Jin, et al. (2011). "PlantTFDB 2.0: update and improvement of the comprehensive plant transcription factor database." Nucleic Acids Res 39(Database issue): D1114-1117.
  • dbDEPC He, Y., M. Zhang, et al. (2012). "dbDEPC 2.0: updated database of differentially expressed proteins in human cancers." Nucleic Acids Res 40(Database issue): D964-971.
  • dbmi Zhao, X., Q. Liu, et al. (2012). "Dr.VIS: a database of human disease-related viral integration sites." Nucleic Acids Res 40(Database issue): D1041-1046.
  • SysPTM Li, H., X. Xing, et al. (2009). "SysPTM: a systematic resource for proteomic research on post-translational modifications." Mol Cell Proteomics 8(8): 1839-1849.
  • TFBS Zheng, G., K. Tu, et al. (2008). "ITFP: an integrated platform of mammalian transcription factors." Bioinformatics 24(20): 2416-2417.
  • ntap He, K., X. Li, et al. (2009). "NTAP: for NimbleGen tiling array ChIP-chip data analysis." Bioinformatics 25(14): 1838-1840.
  • PepDistiller Li, N., S. Wu, et al. (2012). "PepDistiller: A quality control tool to improve the sensitivity and accuracy of peptide identifications in shotgun proteomics." Proteomics 12(11): 1720-1725.
  • Zhang, Y., S. Wang, et al. (2011). "A systems biology-based classifier for hepatocellular carcinoma diagnosis." PLoS One 6(7): e22426.
  • pathloc Zhao, M. and H. Qu (2010). "PathLocdb: a comprehensive database for the subcellular localization of metabolic pathways and its application to multiple localization analysis." BMC Genomics 11 Suppl 4: S13.
  • detoxiprot Yang, Z., Y. Yu, et al. (2011). "DetoxiProt: an integrated database for detoxification proteins." BMC Genomics 12 Suppl 3: S2.
  • TFBS Zheng, G., Z. Qian, et al. (2008). "The combination approach of SVM and ECOC for powerful identification and classification of transcription factor." BMC Bioinformatics 9: 282.
  • GEOGLE Yu, Y., K. Tu, et al. (2009). "GEOGLE: context mining tool for the correlation between gene expression and the phenotypic distinction." BMC Bioinformatics 10: 264.
  • RNAi Liu, Q., Q. Xu, et al. (2010). "Multi-task learning for cross-platform siRNA efficacy prediction: an in-silico study." BMC Bioinformatics 11: 181.
  • DCGL Yu, H., B. H. Liu, et al. (2011). "Link-based quantitative methods to identify differentially coexpressed genes and gene pairs." BMC Bioinformatics 12: 315.
  • DBH2H Yu, H., F. D. Yu, et al. (2009). "DBH2H: vertebrate head-to-head gene pairs annotated at genomic and post-genomic levels." Database (Oxford) 2009: bap006.
  • Zhang, Y., Y. Zhu, et al. (2011). "An overview of human protein databases and their application to functional proteomics in health and disease." Sci China Life Sci 54(11): 988-998.
  • tsdb Zhao, M., Y. Chen, et al. (2011). "TSdb: a database of transporter substrates linking metabolic pathways and transporter systems on a genome scale via their shared substrates." Sci China Life Sci 54(1): 60-64.
  • LysAcet Li, S., H. Li, et al. (2009). "Improved prediction of lysine acetylation by support vector machines." Protein Pept Lett 16(8): 977-983.
  • Oglyc Li, S., B. Liu, et al. (2006). "Predicting O-glycosylation sites in mammalian proteins by using SVMs." Comput Biol Chem 30(3): 203-208.
  • iped2 Zheng, G., H. Li, et al. (2009). "A platform to standardize, store, and visualize proteomics experimental data." Acta Biochim Biophys Sin (Shanghai) 41(4): 273-279.
  • plantTFDB He, K., A. Y. Guo, et al. (2010). "Computational identification of plant transcription factors and the construction of the PlantTFDB database." Methods Mol Biol 674: 351-368.
  • SySAP Huang, T., C. Wang, et al. (2012). "SySAP: a system-level predictor of deleterious single amino acid polymorphisms." Protein Cell 3(1): 38-43.
  • SDSPB Niu, S., Z. Wang, et al. (2012). "Prediction of functional phosphorylation sites by incorporating evolutionary information." Protein Cell.
  • Zhang, Y., T. Li, et al. (2011)."Prelocabc: A Novel Predictor of Protein Sub-cellular Localization Using a Bayesian Classifier" J Proteomics Bioinform 2011, 4: 044-052.
  • MCS 陈健, 鞠元虎, 张国庆, 南蓬:“活性小分子功能筛选平台:M & Function数据平台的设计与实现”复旦大学学报(医学版)已接受
  • hotdata 许庆炜,郭坚:“HotDataSpider,一个生物医学文献热点数据自动化抽取工具”,《计算机与数字工程》 2010年11期,38(11):69-71页,85页,共4页