Professor | Chaochun Wei | Asia Growth Partners

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Name	Chaochun Wei
Contact Information	ccwei@sjtu.edu.cn
Language ability	English, Chinese
Province	Shanghai

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Name

Chaochun Wei

Contact Information

ccwei@sjtu.edu.cn

Language ability

English, Chinese

Province

Shanghai

University/Lab Affiliation and Title	Shanghai Jiao Tong University
Faculty	Life Sciences
Academic Background & Achievements	1991-1996 Bachelor of Mathematics, Peking University 1996-1999 Master of Signal and Information Processing, Peking University 2000-2006 PhD in Computer Science (Computational Biology), University of Washington Published nearly 50 papers in journals like Nature, cited over 5500 times
Work Experience	2015- Professor, Department of Bioinformatics and Biostatistics, School of Life Sciences and Technology, Shanghai Jiao Tong University 2008-2015 Associate Professor, Department of Bioinformatics and Biostatistics, School of Life Sciences and Technology, Shanghai Jiao Tong University 2006-2007 Software Engineer, Microsoft, USA
Awards	2019 Top Ten Algorithms and Tools in Chinese Bioinformatics (2020) Shanghai Jiao Tong University President's Award (2019) Shanghai Jiao Tong University Teaching and Educating Award (2018) Shanghai Jiao Tong University Outstanding Teacher (2015) Shanghai Jiao Tong University Morning Star Plan (2014) Ministry of Education New Century Excellent Talents (2013) Shanghai Pujiang Talent Plan (2009) Synthetic Biology iGEM International Competition Gold Awards (2009, 2014, 2015, 2016, 2019, 2020, 2021)

University/Lab Affiliation and Title

Shanghai Jiao Tong University

Faculty

Life Sciences

Academic Background & Achievements

1991-1996 Bachelor of Mathematics, Peking University
1996-1999 Master of Signal and Information Processing, Peking University
2000-2006 PhD in Computer Science (Computational Biology), University of Washington
Published nearly 50 papers in journals like Nature, cited over 5500 times

Work Experience

2015- Professor, Department of Bioinformatics and Biostatistics, School of Life Sciences and Technology, Shanghai Jiao Tong University
2008-2015 Associate Professor, Department of Bioinformatics and Biostatistics, School of Life Sciences and Technology, Shanghai Jiao Tong University
2006-2007 Software Engineer, Microsoft, USA

Awards

2019 Top Ten Algorithms and Tools in Chinese Bioinformatics (2020)
Shanghai Jiao Tong University President's Award (2019)
Shanghai Jiao Tong University Teaching and Educating Award (2018)
Shanghai Jiao Tong University Outstanding Teacher (2015)
Shanghai Jiao Tong University Morning Star Plan (2014)
Ministry of Education New Century Excellent Talents (2013)
Shanghai Pujiang Talent Plan (2009)
Synthetic Biology iGEM International Competition Gold Awards (2009, 2014, 2015, 2016, 2019, 2020, 2021)

Areas of Focus	Genomics Metagenomics and Pangenomics High-performance computing in bioinformatics Transcriptome variability, regulatory factor identification, gene origin and evolution analysis, impact of repetitive sequences on genome structure and function
Publications	Pangenomic analysis of Chinese gastric cancer, Yu, Y., Zhang, Z., Dong, X., Yang, R., Duan, Z., Xiang, Z., Li, J., Li, G., Yan, F., Xue, H., Jiao, D., Lu, J., Lu, H., Zhang, W., Wei, Y., Fan, S., Li, J., Jia, J., Zhang, J., Ji, J., Liu, P., Lu, H., Zhao, H., Chen, S., Wei, C., Chen, H., Zhu, Z., 2022 Widespread of horizontal gene transfer regions in eukaryotes, Li, K., Yan, F., Duan, Z., Adelson, D., Wei, C., 2022 Long-read sequencing of 111 rice genomes reveals significantly larger pan-genomes, Zhang, F., Xue, H., Dong, X., Li, M., Zheng, X., Li, Z., Xu, J., Wang, W., Wei, C., 2022 HUPAN: a pan-genome analysis pipeline for human genomes, 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., 2019 Genomic variation in 3,010 diverse accessions of Asian cultivated rice, Wang, W., et al., 2018 EUPAN enables pan-genome studies of a large number of eukaryotic genomes, Hu, Z., Sun, C., Lu, K., Chu, X., Zhao, Y., Lu, J., Shi, J., Wei, C., 2017 RPAN: Rice Pan-genome Browser for ~3,000 rice genomes, Sun, C., Hu, Z., Lu, K., Zhao, Y., Lu, J., Zheng, T., Wang, W., Shi, J., Zhang, D., Li, Z., Wei, C., 2017 Revealing missing human protein isoforms based on ab initio prediction, RNA-sesq and proteomics, 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., 2015 Closing in on the C.elegans ORFeome by Cloning TWINSCAN predictions, Wei, C., Lamesch, P., Arumugam M., Rosenberg, J., Hu, P., Vidal, M., and Brent, M. R., 2005 More than 9,000,000 Unique Genes in Human Gut Bacterial Community: Estimating Gene Numbers Inside a Human Body, Yang, X., Xie, L., Li, Y., Wei, C., 2009

Areas of Focus

Genomics
Metagenomics and Pangenomics
High-performance computing in bioinformatics
Transcriptome variability, regulatory factor identification, gene origin and evolution analysis, impact of repetitive sequences on genome structure and function

Publications

Pangenomic analysis of Chinese gastric cancer, Yu, Y.*, Zhang, Z., Dong, X., Yang, R., Duan, Z., Xiang, Z., Li, J., Li, G., Yan, F., Xue, H., Jiao, D., Lu, J., Lu, H., Zhang, W., Wei, Y., Fan, S., Li, J., Jia, J., Zhang, J., Ji, J., Liu, P., Lu, H., Zhao, H., Chen, S., Wei, C.*, Chen, H.*, Zhu, Z.*, 2022
Widespread of horizontal gene transfer regions in eukaryotes, Li, K., Yan, F., Duan, Z., Adelson, D., Wei, C.*, 2022
Long-read sequencing of 111 rice genomes reveals significantly larger pan-genomes, Zhang, F., Xue, H., Dong, X., Li, M., Zheng, X., Li, Z., Xu, J., Wang, W., Wei, C.*, 2022
HUPAN: a pan-genome analysis pipeline for human genomes, 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.*, 2019
Genomic variation in 3,010 diverse accessions of Asian cultivated rice, Wang, W., et al., 2018
EUPAN enables pan-genome studies of a large number of eukaryotic genomes, Hu, Z., Sun, C., Lu, K., Chu, X., Zhao, Y., Lu, J., Shi, J.*, Wei, C.*, 2017
RPAN: Rice Pan-genome Browser for ~3,000 rice genomes, Sun, C., Hu, Z., Lu, K., Zhao, Y., Lu, J., Zheng, T., Wang, W., Shi, J., Zhang, D., Li, Z.*, Wei, C.*, 2017
Revealing missing human protein isoforms based on ab initio prediction, RNA-sesq and proteomics, 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.*, 2015
Closing in on the C.elegans ORFeome by Cloning TWINSCAN predictions, Wei, C., Lamesch, P., Arumugam M., Rosenberg, J., Hu, P., Vidal, M., and Brent, M. R., 2005
More than 9,000,000 Unique Genes in Human Gut Bacterial Community: Estimating Gene Numbers Inside a Human Body, Yang, X., Xie, L., Li, Y., Wei, C*., 2009

Genomics Metagenomics Pangenomics Bioinformatics High-Performance Computing Transcriptome Regulatory Factors Gene Evolution Repetitive Sequences Genome Structure

Qi Liu - Tongji University

Guifen Liu - Tongji University

Kailin Tang - Tongji University

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