联系方式

电话:0755-86392209

邮箱:tt.cai@siat.ac.cn

地址:深圳市南山区深圳大学城学苑大道1068号

蔡云鹏

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QQ截图20171119111526.png     中心执行主任,博士,研究员,博士生导师,深圳市健康大数据分析工程实验室主任

     主要研究方向包括健康大数据、健康信息学、生物信息学、机器学习、进化计算等。已发表学术论文50余篇,包括Nucleic Acids Research, Briefings in Bioinformatics, The ISME Journal等著名期刊上的数篇论文,被引用700余次,一作单篇最高引用220次。目前主持国家自然科技基金面上项目《面向进化基因组学的高通量测序数据流形建模》、国家科技支  撑计划课题缺血性脑血管病和脑肿瘤防治关键技术研究子课题、广东省应用型科技研发专项穿戴式睡眠监测与夜间心脑血管事件预警系统、中科院科技服务网络计划项目子课题《慢性运动康复服务系统在社区的示范应用》,并作为课题组副组长参与国家863计划课题《面向区域医疗和公共卫生的健康大数据处理分析研究及示范应用》。

 联系方式:yp.cai@siat.ac.cn 

 

代表性论文

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.       2. 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

11.   IgM repertoire biodiversity is reduced in HIV-1 infection and systemic lupus erythematosusYin, Li and Hou, Wei and Liu, Li and Cai, Yunpeng and Wallet, Mark Andrew and Gardner, Brent Paul and Chang, Kaifen and Lowe, Amanda Catherine and Rodriguez, Carina Adriana and Sriaroon, Panida and others. Frontiers in immunology: 2013 ,4

12.   Evolving-pattern analysis of transient and long-term biomarkers for cancers: Hepatocellular carcinoma as a caseWang, Yingying and Cai, Yunpeng and Miao, Yingbo. Interdisciplinary Sciences: Computational Life Sciences: 2015 ,1--9

13.   OVERSAMPLING METHOD FOR IMBALANCED CLASSIFICATIONZheng, Zhuoyuan and Cai, Yunpeng and Li, Ye. COMPUTING AND INFORMATICS: 2015 ,34(5) ,1017--1037

14.   Molecular Signatures of Nicotinoid-Pathogen Synergy in the Termite GutSen, Ruchira and Raychoudhury, Rhitoban and Cai, Yunpeng and Sun, Yijun and Lietze, Verena-Ulrike and Peterson, Brittany F and Scharf, Michael E and Boucias, Drion G. PloS one: 2015 ,10(4) ,e0123391

15.   CRISPRdigger: detecting CRISPRs with better direct repeat annotationsGe, Ruiquan and Mai, Guoqin and Wang, Pu and Zhou, Manli and Luo, Youxi and Cai, Yunpeng and Zhou, Fengfeng. Scientific Reports: 2016 ,6

16.   Rectified-Linear-Unit-Based Deep Learning for Biomedical Multi-label DataWang, Pu and Ge, Ruiquan and Xiao, Xuan and Cai, Yunpeng and Wang, Guoqing and Zhou, Fengfeng. Interdisciplinary Sciences: Computational Life Sciences: 2016 ,1--4

17.   Differential impacts of juvenile hormone, soldier head extract and alternate caste phenotypes on host and symbiont transcriptome composition in the gut of the termite Reticulitermes flavipesSen, Ruchira and Raychoudhury, Rhitoban and Cai, Yunpeng and Sun, Yijun and Lietze, Verena-Ulrike and Boucias, Drion G and Scharf, Michael E. BMC genomics: 2013 ,14(1) ,491

18.   The hindgut lumen prokaryotic microbiota of the termite Reticulitermes flavipes and its responses to dietary lignocellulose compositionBoucias, Drion G and Cai, Yunpeng and Sun, Yijun and Lietze, Verena-Ulrike and Sen, Ruchira and Raychoudhury, Rhitoban and Scharf, Michael E. Molecular ecology: 2013

19.   Comparative metatranscriptomic signatures of wood and paper feeding in the gut of the termite Reticulitermes flavipes (Isoptera: Rhinotermitidae)Raychoudhury, Rhitoban and Sen, Ruchira and Cai, Yunpeng and Sun, Yijun and Lietze, Verena-Ulrike and Boucias, Drion G and Scharf, Michael E. Insect Molecular Biology: 2013

20.   A Candidate Molecular Biomarker Panel for the Detection of Bladder CancerUrquidi, Virginia and Goodison, Steve and Cai, Yunpeng and Sun, Yijun and Rosser, Charles J. Cancer Epidemiology Biomarkers & Prevention:2012 ,21(12) ,2149--2158

21.   Secondary structure information does not improve OTU assignment for partial 16s rRNA sequencesWang, Xiaoyu and Cai, Yunpeng and Sun, Yijun and Knight, Rob and Mai, Volker. The ISME Journal: 2011

22.   Fast Implementation of l1 Regularized Learning Algorithms Using Gradient Descent MethodsCai, Yunpeng and Sun, Yijun and Cheng, Yubo and Li, Jian and Goodison, Steve. 10th SIAM International Conference on Data Mining (SDM):

23.   Effective structure learning for EDA via L1-regularizedbayesian networksYang, Jiadong and Xu, Hua and Cai, Yunpeng and Jia, Peifa. Proceedings of the 12th annual conference on Genetic and evolutionary computation: 2010 ,327--334

24.   Online Feature Selection Algorithm with Bayesian L1 RegularizationCai, Yunpeng and Sun, Yijun and Li, Jian and Goodison, Steve. Advances in Knowledge Discovery and Data Mining: 2009 ,401--413

25.   Duple-EDA and sample density balancingCai, Yunpeng and Xu, Hua and Sun, Xiaomin and Jia, Peifa and Liu, Zehua. Science China Series F: Information Science: 2009 ,009 ,1640--1650

26.   Combining nomogram and microarray data for predicting prostate cancer recurrenceSun, Yijun and Cai, Yunpeng and Goodison, Steve. BioInformatics and BioEngineering, 2008. BIBE 2008. 8th IEEE International Conference on:2008 ,1--7

27.   Semi-supervised feature selection under logistic I-RELIEF frameworkCheng, Yubo and Cai, Yunpeng and Sun, Yijun and Li, Jian. Pattern Recognition, 2008. ICPR 2008. 19th International Conference on: 2008 ,1--4

28.   Cross entropy and adaptive variance scaling in continuous EDACai, Yunpeng and Sun, Xiaomin and Xu, Hua and Jia, Peifa. Proceedings of the 9th annual conference on Genetic and evolutionary computation:2007 ,609--616

29.   Probabilistic modeling for continuous EDA with Boltzmann selection and Kullback-Leibeler divergenceCai, Yunpeng and Sun, Xiaomin,and Jia, Peifa. Proceedings of the 8th annual conference on Genetic and evolutionary computation: 2006 ,389--396

30.   Negative correlation learning approach for ts fuzzy modelsCai, Yunpeng and Sun, Xiaomin and Jia, Peifa. Systems, Man and Cybernetics, 2004 IEEE International Conference on: 2004 ,3 ,2254--2259

31.   Technical solutions of TsinghuAeolus for robotic soccerYao, Jinyi and Lao, Ni and Yan, Fan and Cai, Yunpeng and Sun, Zengqi. RoboCup 2003: Robot Soccer World Cup VII: 2004 ,205--213

32.   Forward-facing Modeling for an Electric Vehicle PowertrainCai, Yunpeng and Sun, Xiaomin and Jia, Peifa.

33.   A middleware for signal-flow digital simulation models in electric vehicle powertrainCai, Yunpeng and Sun, Xiaomin and Jia, Peifa. Vehicular Technology Conference, 2003. VTC 2003-Fall. 2003 IEEE 58th: 2003 ,5 ,3267--3271

34.   Architecture of tsinghuaeolusYao, Jinyi and Chen, Jiang and Cai, Yunpeng and Li, Shi. RoboCup 2001: Robot Soccer World Cup V: 2002 ,491--494

35.   Global planning from local eyeshot: An implementation of observation-based plan coordination in robocup simulation gamesCai, Yunpeng and Chen, Jiang and Yao, Jinyi and Li, Shi. RoboCup 2001: Robot Soccer World Cup V: 2002 ,27--70

 

 

 



 

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