董川（Chuan Dong）

1. 个人基本信息，Personal basic information

姓　　名：董川, Chuan Dong
政治面貌：群众，
Github：https://github.com/RiversDong
学　　科: 生物信息学, Bioinformatics
电子邮件: chuand[at]zafu.edu.cn

通讯地址: 浙江省杭州市临安区武肃街666号, 浙江农林大学亚热带森林培育国家重点实验室
ADDR: No. 88 Wushu Street, Linan Hangzhou 311300, Zhejiang, P.R. China. State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University. 

Google学术: https://scholar.google.com/citations?user=Q0FvyG0AAAAJ&hl=zh-CN
ResearchGate: https://www.researchgate.net/profile/Chuan-Dong

2. 研究关键字，Research Keywords
  • 新基因起源和演化、机器学习、生物信息、微生物、香榧
    Origins and evolution of new genes, machine learning, bioinformatics, microbiology, Torreya grandis
3. 学习教育经历，Education and learning experience
  • 2010年9月—2014年7月：德州学院 应用物理学 理学学士
    September 2010 - July 2014: Bachelor of Science in Applied Physics, Dezhou University
  • 2014年9月—2016年7月：电子科技大学 生物物理学 硕士
    September 2014 - July 2016: Master of Science in Biophysics, University of Electronic Science and Technology of China
  • 2016年9月—2020年12月：电子科技大学 生物医学工程 工学博士
    September 2016 - December 2018: Doctor of Engineering in Biomedical Engineering, University of Electronic Science and Technology of China
  • 2018年12月—2021年1月：芝加哥大学 新基因起源和演化 联合培养博士（国家建设高水平大学公派留学项目）；
    December 2018 - January 2021: Joint Doctoral Program in New Gene Origins and Evolution, University of Chicago (sponsored by the National High-level University Overseas Study Program)
4. 工作经历，Work experience
  • 2021年3月—2023年8月：武汉大学 药学院 博士后
    March 2021 - August 2023: Postdoctoral Researcher, School of Pharmacy, Wuhan University
5. 代表性论文，Publications
  1. Chuan Dong, Li Zhang, Shengqian Xia, Dylan Sosa, Deanna Arsala, Andrew G. Clark, Rod A. Wing, Manyuan Long, New gene evolution with subcellular expression patterns detected in PacBio-sequenced genomes of Drosophila genus, 2022, doi: https://doi.org/10.1101/2022.11.30.518489. (Under review).
  2. Jiafeng Yu, Wenwen Jiang, Sen-Bin Zhu, Zhen Liao, Xianghua Dou, Jian Liu, Feng-Biao Guo, Chuan Dong*. Prediction of protein-coding small ORFs in multi-species using integrated sequence-derived features and the random forest model. Methods, 210(1) 2023, 10-19.
  3. Chuan Dong, Ge-Fei Hao, Hong-Li Hua, Shuo Liu, Abraham Alemayehu Labena, Guoshi Chai, Jian Huang, Nini Rao, Feng-Biao Guo*. Anti-CRISPRdb: a comprehensive online resource for anti-CRISPR proteins. Nucleic Acids Research, 2018, 46(D1): D393-D398. 
  4. Chuan Dong, Yan-Ting Jin, Hong-Li Hua, Qing-Feng Wen, Sen Luo, Wen-Xin Zheng, Feng-Biao Guo. Comprehensive review of the identification of essential genes using computational methods: focusing on feature implementation and assessment. Briefings in Bioinformatics, 2020, 21(1): 171-181. 
  5. Chuan Dong, Zhi Zeng, Dong-Kai Pu, Qing-Feng Wen, Shuo Liu, Meng-Ze Du, Yan Sun, Yi-Zhou Gao, Nini Rao, Jian Huang, Feng-Biao Guo. CasLocusAnno: a web-based server for annotating Cas loci and their corresponding (sub) types. FEBS Letters, 2019, 593(18):2646-2654. 
  6. Chuan Dong, Ya-Zhou Yuan, Fa-Zhan Zhang, Hong-Li Hua, Yuan-Nong Ye, Abraham Alemayehu Labena, Hao Lin, Wei Chen, Feng-Biao Guo. Combining pseudo dinucleotide composition with the Z curve method to improve the accuracy of predicting DNA elements: a case study in recombination spots. Molecular BioSystems, 2016, 12(9): 2893-2900.
  7. Chuan Dong, Xin Wang, Cong Ma, Zhi Zeng, Dong-Kai Pu, Shuo Liu, Candy-S Wu, Shixin Chen, Zixin Deng, Feng-Biao Guo. Anti-CRISPRdb v2. 2: an online repository of anti-CRISPR proteins including information on inhibitory mechanisms, activities and neighbors of curated anti-CRISPR proteins. Database, 2022, 2022: baac010. 
  8. Chengchi Fang†, Chuan Dong,†, Cheng Wang, Fan Xiong, Xiaoni Gan, Liandong Yang, Honghui Zeng, Shunping He*. GageTracker: a tools for dating gene age by micro- and macro- collinearity in a high speed and accuracy (共同一作)
  9. Feng-Biao Guo, Chuan Dong, Hong-Li Hua, Shuo Liu, Hao Luo, Hong-Wan Zhang, Yan-Ting Jin, Kai-Yue Zhang. Accurate prediction of human essential genes using only nucleotide composition and association information. Bioinformatics, 2017, 33(12): 1758-1764. 
  10. Yuan Huang, Jiahui Chen, Chuan Dong, Dylan Sosa, Shengqian Xia, Yidan Ouyang, Chuanzhu Fan, Dezhu Li, Emily Mortola, Manyuan Long, Joy Bergelson. Species-specific gene duplication in Arabidopsis thaliana evolved novel phenotypic effects on morphological traits under strong positive selection. The Plant Cell, 2022, 34(2): 802-817. 
  11. Guifa Zhai, Yan Zhu, Guo Sun, Fan Zhou, Yangning Sun, Zhou Hong, Chuan Dong, Peter F. Leadlay, Kui Hong, Zixin Deng, Fuling Zhou and Yuhui Sun. Insights into azalomycin F assembly-line contribute to evolution-guided polyketide synthase engineering and identification of intermodular recognition[J]. Nature Communications, 2023, 14(1): 612. 
  12. Qing-Feng Wen, Shuo Liu, Chuan Dong, Hai-Xia Guo, Yi-Zhou Gao, Feng-Biao Guo*. Geptop 2.0: an updated, more precise, and faster Geptop server for identification of prokaryotic essential genes. Frontiers in Microbiology, 2019, 10: 1236. (IF: 5.64).