Chaochun Wei

Professor

  • Tel: +86-021-34204083
  • Email: ccwei@sjtu.edu.cn
  • Address:
  • Lab Web: http://cgm.sjtu.edu.cn/index/index.php
  • Professor. BS from Peking University, ScD from Washington University (US). Research areas: Genomics and Evolutionary Genomics, including functional element identification and their evolution analysis, eukaryote pan-genomics, cancer genomics and metagenomics. Published ~40 papers in Nature et al, with citations > 4000. Chancellor's Award.

Education and Research Experience

  • 2015-                     Professor, Department of Bioinformatics & Biostatistics, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University
  • 2008-2015              Associate Professor, Department of Bioinformatics & Biostatistics, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University
  • 2006-2007              Software Engineer, Microsoft, USA
  • 2000-2006              Sc.D in Computer Science, Washingtong University in St. Louis, MO, USA
  • 1996-1999              Master in Signal and Information Processing, Center for Information Science, Beijing University, China
  • 1991-1996              BS in Mathematics, Department of Mathematics, Beijing University, China

Selected Publications

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    Duan, Z., Qiao, Y., Lu, J., Lu, H., Zhang, W., Yan, F., Sun, C., Hu, Z., Zhang, Z., Li, G., Chen, H., Xiang, Z., Zhu, Z., Zhao, H., Yu, Y.*, Wei, C.*, HUPAN: a pan-genome analysis pipeline for human genomes, Genome Biology, 2019, 20:149

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    Wang, W., et al., "Genomic variation in 3,010 diverse accessions of Asian cultivated rice", Nature, 2018, 557:43-49 (co-corresponding author)

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    Hu, Z., Sun, C., Lu, K., Chu, X., Zhao, Y., Lu, J., Shi, J.*, Wei, C.*, “EUPAN enables pan-genome studies of a large number of eukaryotic genomes”, Bioinformatics, 2017, btx170.

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    Sun, C., Hu, Z., Lu, K., Zhao, Y., Lu, J., Zheng, T., Wang, W., Shi, J., Zhang, D., Li, Z.*, Wei, C.*, “RPAN: Rice Pan-genome Browser for ~3,000 rice genomes”, Nucleic Acids Research, 2017, 45(2): 597-605.

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    The MGC Project Team, “The Completion of the Mammalian Gene Collection (MGC)”, Genome Research, 2009, 19:2324-2333

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    Xu,P., Zhang, L., Xiao, Y., Li, W., Hu, Z., Zhang, R., Li, J., Wu, F., Xi, Y., Zou, Q., Wang, Z., Guo, R., Ma, H., Dong, S., Xiao, M., Yang, Z., Ren, X., Wei, C.*, Yu, W.*, “UHRF1 regulates alternative splicing by binding to splicing factors and U snRNAs”, Human Molecular Genetics, 2021, 30(22)2110-2122

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    Hu, Z., Scott, H., Qin, G., Zheng, G, Chu, X., Xie, L., Adelson, D., Oftedal, B., Venugopal, P., Babic, M., Hahn, C., Zhang, B., Wang, X., Li, N., Wei, C.*, "Revealing missing human protein isoforms based on ab initio prediction, RNA-sesq and proteomics", Scientific Reports, 2015, 5:10940 

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    Wei, C., Lamesch, P., Arumugam M., Rosenberg, J., Hu, P., Vidal, M., and Brent, M. R. “Closing in on the C.elegans ORFeome by Cloning TWINSCAN predictions”, Genome Research, 2005, 15:577-582.

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    Jia, B.#, Li, X.#, Liu, W., Lu, C., Lu, X., Ma, L., Li, Y.*, Wei, C.*, “GLAPD: whole genome based LAMP primer design for a set of target genomes”, Frontiers in Microbiology, 2019, 10:2860.

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    Yang, X., Xie, L., Li, Y., Wei, C*. “More than 9,000,000 Unique Genes in Human Gut Bacterial Community: Estimating Gene Numbers Inside a Human Body”, PLoS ONE, 2009, 4(6): e6074.