Dr. Chaochun Wei, Department of Bioinformatics and Biostatistics

Representative Publications

See the full list here.

(* corresponding author)

• Zhao, K., Xue, H., Li, G.,Chitikineni, A., Fan, Y., Cao, Z., Dong, X., Lu, H., Zhao, K., Zhang, L., Qiu, D, Ren, R., Gong, F., Li, Z., Ma, X., Wan, S., Varshney*, R.,Wei, C.*,Yin, D.*, "Pangenome analysis reveals structural variation associated with seed size and weight traits in peanut",Nature Genetics, 28 April 2025, [article]

• Zhang, F., Xue, H., Dong, X., Li, M., Zheng, X., Li, Z., Xu, J., Wang, W., andWei, C.*, "Long-read sequencing of 111 rice genomes reveals significantly larger pan-genomes",Genome Research, 2022,32:853-863. [article]

• 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.*, "Pangenomic analysis of Chinese gastric cancer",Nature Communications, 2022, 13:5412.1. [article]

• 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. [article]

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

• 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, 2017,33(15)2408-2409. [article]

• Huang, W., Tsai L., Li, Y., Hua, N., Sun, C.,Wei, C.*, "Widespread of Horizontal Gene Transfer in the Human Genome",BMC Genomics, 2017, 18:274. [article]

• 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. [article]

• 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-seq and proteomics",Scientific Reports, 2015, 5:10940. [article]

• The MGC Project Team, "The Completion of the Mammalian Gene Collection (MGC)",Genome Research, 2009, 19:2324-2333. [artile]

• 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. [article]

• Wei, C.and Brent, M. R., "Using ESTs to Improve the Accuracy of de novo Gene Prediction",BMC Bioinformatics, 2006, 7:327.[article].

• 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.[article].
  Reported byNature Reviews GeneticsasResearch Highlight.

©2011 Chaochun Wei