Dong Zou

Senior Engineer

Team Leader, Software & System Development

Email: zoud (AT) big.ac.cn

Tel: +86 (10) 8409-7845

PROFESSIONAL EXPERIENCE

  • Senior Engineer, National Genomics Data Center,  Beijing Institute of Genomics, Chinese Academy of Sciences/China National Center for Bioinformation,  2021.1 −

  • Engineer, National Genomics Data Center,  Beijing Institute of Genomics, Chinese Academy of Sciences/China National Center for Bioinformation,  2020.1 − 2020-12

  • Assistant Professor, BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences,  2016.3 − 2019.12

  • Assistant Professor, CAS Key Laboratory of Genome Sciences & Information, Beijing Institute of Genomics, Chinese Academy of Sciences, 2015.1 − 2016.2

  • Research Assistant, CAS Key Laboratory of Genome Sciences & Information, Beijing Institute of Genomics, Chinese Academy of Sciences, 2009.9 − 2014.12

EDUCATION

  • B.S. in Computer Science, Central South University of Forestry and Technology, China, 2009

RESEARCH INTERESTS

  • Big Data Integration and Analytics

  • Software & System Development

PROJECTS & RESOURCES

  • 2019nCoVR, 2019 Novel Coronavirus Resource.

  • BIGSearch, a scalable text search engine that features cross-domain search and facilitates users to gain access to a wide range of biomedical data.

  • DatabaseCommons, a catalog of biological databases.

  • Gene Expression Nebulas, a data portal of gene expression profiles under various conditions derived entirely from RNA-Seq data analysis in multiple species.

  • MethBank, a database that integrates genome-wide DNA methylomes across a variety of species and provides an interactive browser for visualization of high-resolution DNA methylation data.

  • IC4R, a rice knowledgebase based on an extensible and sustainable architecture that achieves data integration through community-contributed modules.

  • EHR, electronic health reports.

ACADEMIC ACTIVITIES

  • Report: The 9th National Conference on Bioinformatics and Systems Biology of China, BIG Search: a Cross-database Search System for Multi-dimensional Biological Big Data

  • Poster: Biocuration 2015, MethBank: a database integrating next-generation sequencing single-base-resolution DNA methylation programming data.

  • Poster: International Conference of Genomics 2015, Rice Expression Database (RED): an Integrated RNA-Seq-derived Gene Expression Database for Rice.

PUBLICATIONS

  1. Shuhui Song#, Lina Ma#, Dong Zou#, Dongmei Tian, Cuiping Li, Junwei Zhu, Meili Chen, Anke Wang, Yingke Ma, Mengwei Li, Xufei Teng, Ying Cui, Guangya Duan, Mochen Zhang, Tong Jin, Chengmin Shi, Zhenglin Du, Yadong Zhang, Chuandong Liu, Rujiao Li, Jingyao Zeng, Lili Hao, Shuai Jiang, Hua Chen, Dali Han, Jingfa Xiao, Zhang Zhang, Wenming Zhao, Yongbiao Xue, Yiming Bao. The global landscape of SARS-CoV-2 genomes, variants, and haplotypes in 2019nCoVR.Genomics Proteomics Bioinformatics. 2020

  2. Zheng Gong, Jun-Wei Zhu, Cui-Ping Li, Shuai Jiang, Li-Na Ma, Bi-Xia Tang, Dong Zou, Mei-Li Chen, Yu-Bin Sun, Shu-Hui Song, Zhang Zhang, Jing-Fa Xiao, Yong-Biao Xue, Yi-Ming Bao, Zheng-Lin Du, Wen-Ming Zhao. An online coronavirus analysis platform from the National Genomics Data Center. Zoological research, 2020

  3. Zou D# as co-first author in Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021. Nucleic Acids Res 2021

  4. Zhao Li, Lin Liu, Shuai Jiang, Qianpeng Li, Changrui Feng, Qiang Du, Dong Zou, Jingfa Xiao, Zhang Zhang, Lina MaLncExpDB: an expression database of human long non-coding RNAs. Nucleic Acids Res 2021

  5. Zhao WM#, Song SH#, Chen ML#Zou D#Ma LN, Ma YK, Li RJ, Hao LL, Li CP, Tian DM, Tang BX, Wang YQ, Zhu JW, Chen HX, Zhang Z, Xue YB*, Bao YM*. The 2019 novel coronavirus resource. Yi Chuan. 2020;42(2):212-221.

  6. Sang J#, Zou D#, Wang ZN#, Wang F, Zhang YS, Xia L, Li ZH, Ma LN, Li MW, Xu BX, Liu XN, Wu SY, Liu L, Niu GY, Li M, Luo YF, Hu SN, Hao LL, Zhang Z*: IC4R-2.0: Rice Genome Reannotation Using Massive RNA-seq Data. Genomics Proteomics & Bioinformatics 2020

  7. Yan J#, Zou D#, Li C, Zhang Z, Song S*, Wang X*. SR4R: An Integrative SNP Resource for Genomic Breeding and Population Research in Rice. Genomics Proteomics Bioinformatics. 2020

  8. Zou D# as co-first author in National Genomics Data Center Members and Partners: Database Resources of the National Genomics Data Center in 2020. Nucleic Acids Res 2020

  9. Li Z, Zhang Y, Zou, D, Zhao Y, Wang H, Zhang Y, Xia X, Luo J, Guo H and Zhang Z:  LSD 3.0: a comprehensive resource for the leaf senescence research communityNucleic Acids Res 2020

  10. Tian D, Wang P, Tang B, Teng X, Li C, Liu X, Zou D, Song S, Zhang Z: GWAS Atlas: a curated resource of genome-wide variant-trait associations in plants and animals. Nucleic Acids Res 2020

  11. Zou D as co-author of Whole Genome Analyses of Chinese Population and De Novo Assembly of A Northern Han Genome.  Genomics Proteomics & Bioinformatics 2019.

  12. Ma LN, Cao J, Liu L, Li Z, Shireen H, Pervaiz N, Batool F, Raza R, Zou D, Bao YM, Abbasi AA, Zhang Z: Community curation and expert curation of human long non-coding RNAsCurrent Protocols in Bioinformatics 2019, 67(1):e82.

  13. Zou D# as co-first author in BIG Data Center Members: Database Resources of the BIG Data Center in 2019Nucleic Acids Res 2019

  14. Li M#, Zou D#, Li Z#, Gao R, Sang J, Zhang Y, Li R, Xia L, Zhang T, Niu G, Bao Y, Zhang Z: EWAS Atlas: a curated knowledgebase of epigenome-wide association studiesNucleic Acids Res 2019.

  15. Niu G#Zou D#, Li M, Zhang Y, Sang J, Xia L, Li M, Liu L, Cao J, Zhang Y, Wang P, Hu S, Hao L, Zhang Z: Editome Disease Knowledgebase (EDK): A curated knowledgebase of editome-disease associations in humanNucleic Acids Res 2019.

  16. Ma L, Cao J, Liu L, Du Q, Li Z, Zou D, Bajic VB, Zhang Z: LncBook: a curated knowledgebase of human long non-coding RNAsNucleic Acids Res 2019.

  17. Li M, Xia L, Zhang Y, Niu G, Li M, Wang P, Zhang Y, Sang J, Zou D, Hu S, Hao L, Zhang Z: Plant Editosome Database: a curated database of RNA editosome in plantsNucleic Acids Res 2019.

  18. Li RJ#, Liang F#, Li MW#Zou D#, Sun SX, Zhao YB, Zhao WM, Bao YM, Xiao JF, Zhang Z*: MethBank 3.0: a database of DNA methylomes across a variety of speciesNucleic Acids Res 2018. Jan 4;46(D1):D288-D295.

  19. Zou D# as co-first author in BIG Data Center Members: Database Resources of the BIG Data Center in 2018Nucleic Acids Res 2018. Jan 4;46(D1):D14-D20. [PMID=29036542]

  20. Sang J, Wang Z, Li M, Cao J, Niu G, Xia L, Zou D, Wang F, Xu X, Han X, Fan J, Yang Y, Zuo W, Zhang Y, Zhao W, Bao Y, Xiao J, Hu S, Hao L, Zhang Z: ICG: a wiki-driven knowledgebase of internal control genes for RT-qPCR normalizationNucleic Acids Res  2018. Jan 4;46(D1):D121-D126 [PMID=29036693

  21. Xia L#Zou D#, Sang J, Xu XJ, Yin HY, Li MW, Wu SY, Hu SN, Hao LL*, Zhang Z*: Rice Expression Database (RED): an integrated RNA-Seq-derived gene expression database for rice. Journal of Genetics and Genomics, 2017, 44(5):235-241. [PMID=28529082]

  22. Zou D# as co-first author in BIG Data Center MembersThe BIG Data Center: from deposition to integration to translationNucleic Acids Res 2017.

  23. Zou D# as co-first author in IC4R Project Consortium: Information Commons for Rice (IC4R)Nucleic Acids Research 2016, 44(D1):D1172-1180. [PMID=26519466]

  24. Zou D#, Sun S#, Li R, Liu J, Zhang J, Zhang Z: MethBank: a database integrating next-generation sequencing single-base-resolution DNA methylation programming data.Nucleic acids research 2015, 43(Database issue):D54-58. [PMID=25294826]

  25. Zou D#, Ma L#, Yu J, Zhang Z: Biological databases for human researchGenomics Proteomics Bioinformatics 2015, 13(1):55-63. [PMID=25712261]

  26. Ma L, Li A, Zou D, Xu X, Xia L, Yu J, Bajic VB, Zhang Z: LncRNAWiki: harnessing community knowledge in collaborative curation of human long non-coding RNAsNucleic Acids Res 2015, 43(Database issue):D187-192. [PMID=25399417]

  27. Zhang Z, Sang J, Ma L, Wu G, Wu H, Huang D, Zou D, Liu S, Li A, Hao L, Tian M, Xu C, Wang X, Wu J, Xiao J, Dai L, Chen LL, Hu S, Yu J: RiceWiki: a wiki-based database for community curation of rice genesNucleic Acids Research 2014, 42(Database issue): D1222-1228. [PMID=24136999]

  28. Dai L, Xu C, Tian M, Sang J, Zou D, Li A, Liu G, Chen F, Wu J, Xiao J, Wang X, Yu J, Zhang Z: Community intelligence in knowledge curation: an application to managing scientific nomenclaturePLoS One 2013, 8(2):e56961. [PMID=23451119]