Address:1068 Xueyuan Boulevard, University Town of Shenzhen, Xili Nanshan, Shenzhen, China

Yunpeng Cai

PhD,  Professor, Executive Director, Guandong Engineering Center & Shenzhen Engineering Lab for Health Big Data Analysis.

Personal Website:


  • singhua University  Ph.D, Department of Computer Science and Technology | 2001.9-2007.1

  • Tsinghua University  B.S, Department of Enginnering Physics  | 1997.9-2001.7

Work Experience:

  • Associate Professor, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences  Research Center for Biomedical Information Technology | 2011.6-Until Now

  • Postdoctoral Associate, University of Florida  Interdisciplinary Center for Biotechnology Research & Department of Electrical and Computer Engineering | 2007.11-2011.4

  Research Field:

   BioinformaticsHealth Informaticsmachine learningmetagenomic

  Representive Publications:

      1.ESPRIT-Forest: Parallel clustering of massive amplicon sequence data in subquadratic timeYunpeng Cai*, Wei Zheng, Jin Yao, Yujie Yang, Volker    Mai,  Qi Mao, Yijun Sun. PLOS Computational Biology: 2017 ,13(4) ,e1005518

      2.ESPRIT-Tree: hierarchical clustering analysis of millions of 16S rRNA pyrosequences in quasilinear computational timeYunpeng Cai and Yijun Sun*. Nucleic acids research: 2011 ,39(14) ,e95--e95

      3.ESPRIT: estimating species richness using large collections of 16S rRNA pyrosequencesSun, Yijun* and Cai, Yunpeng* and Liu, Li and Yu, Fahong and Farrell, Michael L and McKendree, William and Farmerie, William. Nucleic acids research: 2009 ,37(10) ,e76--e76

      4.Multi-label Learning for Predicting the Activities of Antimicrobial PeptidesPu Wang, Ruiquan Ge, Limin Liu, Xuan Xiao, Ye Li, Yunpeng Cai. Scientific reports: 2017 ,7(1) ,2202

      5.A survey on database resources for microRNA--disease relationshipsWang, Yingying and Cai, Yunpeng. Briefings in functional genomics: 2016 ,elw015

      6.A large-scale benchmark study of existing algorithms for taxonomy-independent microbial community analysisSun*, Yijun and Cai*, Yunpeng and Huse, Susan M and Knight, Rob and Farmerie, William G and Wang, Xiaoyu and Mai, Volker. Briefings in bioinformatics: 2012 ,13(1) ,107--121

      7.Advanced computational algorithms for microbial community analysis using massive 16S rRNA sequence data(* joint first authors)Sun, Yijun* and Cai, Yunpeng* and Mai, Volker and Farmerie, William and Yu, Fahong and Li, Jian and Goodison, Steve. Nucleic acids research: 2010 ,38(22) ,e205--e205

      8.Obtaining Human Ischemic Stroke Gene Expression Biomarkers from Animal Models: A Cross-species Validation StudyWang, Yingying and Cai, Yunpeng. Scientific Reports: 2016 ,6

      9.Parallel Hierarchical Clustering in Linearithmic Time for Large-Scale Sequence AnalysisMao, Qi and Zheng, Wei and Wang, Li and Cai, Yunpeng and Mai, Volker and Sun, Yijun. Data Mining (ICDM), 2015 IEEE International Conference on: 2015 ,310--319

      10.Learning Sparse Gaussian Bayesian Network Structure by Variable GroupingYang, Jie and Leung, Henry and Yiu, SM and Cai, Yunpeng and Chin, Francis YL. Data Mining (ICDM), 2014 IEEE International Conference on:2014 ,1073--1078

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