Research Areas:

Biomedical databases and knowledge bases, focusing on the integration and management of multi-omics data, literature data, health and medical real-world data in the fields of precision medicine, natural and disease population cohorts, human phenome, environmental and pathogen as well as human microbiome.

Brief Biography:

2017-Present: Professor, Principal Investigator, Shanghai Institute of Nutrition and Health, Chinese Academy of Sciences

2016-2017: Professor, Principal Investigator, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences

2007-2016: Leader, Life Science Center, Shanghai Center for Bioinformation

2006-2007: Senior Researcher, Life Science Center, Shanghai Center for Bioinformation

2003-2006: Ph.D., Huazhong University of Science and Technology

Selected Publications: (#First author, *Corresponding author)

1. Ruifang Cao#, Yunchao Ling#, Jiayue Meng#, Ao Jiang, Ruijin Luo, Qinwen He, Anan Li, Yujie Chen, Zoutao Zhang, Feng Liu*, Yixue Li*, Guoqing Zhang*. SMDB: a Spatial Multimodal Data Browser. Nucleic Acids Res 2023 Jul 5;51(W1):W553-W559.
2. Tingjun Xu#, Wenxing Gao#, Lixin Zhu*, Wanning Chen, Chaoqun Niu, Wenjing Yin, Liangxiao Ma, Xinyue Zhu, Yunchao Ling, Sheng Gao, Lei Liu, Na Jiao, Weiming Chen, Guoqing Zhang*, Ruixin Zhu*, Dingfeng Wu*. NAFLDkb: A Knowledge Base and Platform for Drug Development against Nonalcoholic Fatty Liver Disease. J Chem Inf Model 2023 May 11. doi: 10.1021/acs.jcim.3c00395.
3. Feng Xu#, Yifan Wang#, Yunchao Ling, Chenfen Zhou, Haizhou Wang, Andrew E. Teschendorff, Yi Zhao, Haitao Zhao, Yungang He*, Guoqing Zhang*, Zhen Yang*. dbDEMC 3.0: Functional Exploration of Differentially Expressed miRNAs in Cancers of Human and Model Organisms. Genomics Proteomics Bioinformatics 2022 Jun;20(3):446-454.
4. Yunchao Ling#, Ruifang Cao#, Jiaqiang Qian#, Jiefu Li, Haokui Zhou, Liyun Yuan, Zhen Wang, Liangxiao Ma, Guangyong Zheng, Guoping Zhao, Zefeng Wang*, Guoqing Zhang*, Yixue Li*. An interactive viral genome evolution network analysis system enabling rapid large-scale molecular tracing of SARS-CoV-2. Sci Bull (Beijing) 2022 Apr 15;67(7):665-669.
5. Yiwei Wang#, Jiaxin Yang#, Xinhao Zhuang#, Yunchao Ling, Ruifang Cao, Qingwei Xu, Peng Wang*, Ping Xu*, Guoqing Zhang*. Linking genomic and epidemiologic information to advance the study of COVID-19. Sci Data 2022 Mar 30;9(1):121.
6. Dalang Yu#, Xiao Yang#, Bixia Tang#, Yi-Hsuan Pan#, Jianing Yang#, Guangya Duan#, Junwei Zhu, Ziqian Hao, Hailong Mu, Long Dai, Wangjie Hu, Mochen Zhang, Ying Cui, Tong Jin, Cuiping Li, Lina Ma, Language translation team, Xiao Su, Guoqing Zhang*, Wenming Zhao*, Haipeng Li*. Coronavirus GenBrowser for monitoring the transmission and evolution of SARS-CoV-2. Brief Bioinform 2022 Mar 10;23(2):bbab583.
7. Ningning Liu#, Na Jiao#, Jingcong Tan#, Ziliang Wang#, Dingfeng Wu, Anjun Wang, Jie Chen, Liwen Tao, Chenfen Zhou, Wenjie Fang, Lo Hong Cheong, Weihua Pan, Wanqing Liao, Zisis Kozlakidis, Christopher Heeschen, Geromy G. Moore, Lixin Zhu*, Xingdong Chen*, Guoqing Zhang*, Ruixin Zhu*, Hui Wang*. Multi-kingdom microbiota analyses identify bacterial-fungal interactions and biomarkers of colorectal cancer across cohorts. Nat Microbiol 2022 Feb;7(2):238-250.
8. Weidi Huang#, Yunchao Ling#, Sirui Zhang, Qiguang Xia, Ruifang Cao, Xiaojuan Fan, Zhaoyuan Fang, Zefeng Wang*, Guoqing Zhang*. TransCirc: an interactive database for translatable circular RNAs based on multi-omics evidence. Nucleic Acids Res 2021 Jan 8;49(D1):D236-D242.
9. Chenfen Zhou#, Qingwei Xu, Sheng He, Wei Ye, Ruifang Cao, Pengyu Wang, Yunchao Ling, Xing Yan, Qingzhong Wang, Guoqing Zhang*. GTDB: an integrated resource for glycosyltransferase sequences and annotations. Database (Oxford) 2020 Jan 1;2020:baaa047.
10. Dalang Yu#, Lili Dong#, Fangqi Yan#, Hailong Mu#, Bixia Tang#,Xiao Yang, Tao Zeng, Qing Zhou, Feng Gao, Zhonghuang Wang, Ziqian Hao, Hongen Kang, Yi Zheng, Hongwei Huang, Yuzhang Wei, Wei Pan, Yaochen Xu, Junwei Zhu, Shilei Zhao, Ciran Wang, Pengyu Wang, Long Dai, Mushan Li, Li Lan, Yiwei Wang, Hua Chen, Yixue Li, Yunxin Fu, Zhen Shao, Yiming Bao, Fangqing Zhao, Luonan Chen, Guoqing Zhang*, Wenming Zhao*, Haipeng Li*. eGPS 1.0: comprehensive software for multi-omic and evolutionary analyses. Natl Sci Rev 2019 Oct;6(5):867-869.