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樊伟

樊伟                               

研究员、博士生导师

生态基因组研究中心 农业宏基因组学创新团队首席科学家

fanwei@caas.cn

 

个人简介:

樊伟,研究员,博士生导师,中国农科院青年英才,深圳市国家级领军人才。当前主要开展农业领域的微生物宏基因组研究。长期从事基因组学与生物信息学领域,主要学术成就有:主持和参与完成了多个大型基因组学项目,包括灭蚊芽孢杆菌、黄瓜、大熊猫和首个亚洲人的基因组测序和分析,首次利用二代测序技术完成高等生物大熊猫基因组研究,首次利用单细胞测序技术完成人类精子和卵子细胞水平基因组研究,首次在国际上完成了鸡肠道宏基因组系统研究,并开发了多个生物信息学软件。研究成果发表于Nature、Science、Cell、Bioinformatics等国际期刊,累积引用次数超过3700次,其中“大熊猫基因组”入选2010年中国十大科技进展,“利用极体高通量测序结果精确推演出母源基因组信息”入选2014年中国科学十大进展。

 

工作经历:

2005年7月–2007年7月, 生物基因组学技术员,北京华大基因研究中心

2007年8月-2011年12月,项目负责人,深圳华大基因研究院

2012年1月-2012年8月,生物基因组学工程师,北京大学生物动态光学成像中心

2015年7月-至今,首席科学家,中国农业科学院深圳农业基因组研究所

 

学习经历:

2001年9月-2005年6月,理学学士,南开大学生物技术

2012年9月-2015年6月,理学硕士,北京大学生物信息学

 

所获荣誉:

1.2010年 深圳市国家级人才

2.2015年 中国农业科学院青年英才

 

学术论文:

第一作者论文

1.Yu Hou#, Wei Fan#, Liying Yan#, Rong Li, Ying Lian, Jin Huang, Jinsen Li, Liya Xu, Fuchou Tang*, X. Sunney Xie*, Jie Qiao*, Genome Analyses of Single Human Oocytes, Cell, 2013,155(7): 1492-1506

3.Sijia Lu#, Chenghang Zong#, Wei Fan#, Mingyu Yang#, Jinsen Li, Alec R. Chapman, Ping Zhu, Xuesong Hu, Liya Xu, Liying Yan, Fan Bai, Jie Qiao, Fuchou Tang, Ruiqiang Li*, X. Sunney Xie*, Probing Meiotic Recombination and Aneuploidy of Single Sperm Cells by Whole Genome Sequencing, Science, 2012, 338(6114): 1627-1630

4.Wei Fan, Ruiqiang Li*, Test driving genome assemblers, Nature Biotechnology, 2012,30(4): 330

5. Ruiqiang Li#, Wei Fan#, Geng Tian#, Hongmei Zhu1#, Lin He#, Jing Cai#, Quanfei Huang, Qingle Cai, Bo Li, Yinqi Bai, Zhihe Zhang, Yaping Zhang, Wen Wang, Jun Li, Fuwen Wei, Heng Li, Min Jian, Jianwen Li, Zhaolei Zhang, Rasmus Nielsen, Dawei Li, Wanjun Gu, Zhentao Yang, Zhaoling Xuan, Oliver A. Ryder, Frederick Chi-Ching Leung, Yan Zhou, Jianjun Cao, Xiao Sun, Yonggui Fu, Xiaodong Fang, Xiaosen Guo, BoWang, Rong Hou, Fujun Shen, Bo Mu, Peixiang Ni, Runmao Lin, Wubin Qian, Guodong Wang, Chang Yu, Wenhui Nie, Jinhuan Wang, Zhigang Wu, Huiqing Liang, Jiumeng Min,Qi Wu , Shifeng Cheng, Jue Ruan, Mingwei Wang, Zhongbin Shi, Ming Wen, Binghang Liu, Xiaoli Ren, Huisong Zheng, Dong Dong, Kathleen Cook, Gao Shan, Hao Zhang, Carolin Kosiol, Xueying Xie, Zuhong Lu, Hancheng Zheng, Yingrui Li1, Cynthia C. Steiner, Tommy Tsan-Yuk Lam, Siyuan Lin, Qinghui Zhang, Guoqing Li, Jing Tian, Timing Gong, Hongde Liu, Dejin Zhang, Lin Fang, Chen Ye, Juanbin Zhang, Wenbo Hu, Anlong Xu, Yuanyuan Ren, Guojie Zhang, Michael W. Bruford, Qibin Li1, Lijia Ma, Yiran Guo, Na An , Yujie Hu, Yang Zheng, Yongyong Shi, Zhiqiang Li, Qing Liu, Yanling Chen, Jing Zhao, Ning Qu, Shancen Zhao, Feng Tian, Xiaoling Wang, Haiyin Wang, Lizhi Xu, Xiao Liu, Tomas Vinar, Yajun Wang, Tak-Wah Lam, Siu-Ming Yiu, Shiping Liu, Hemin Zhang, Desheng Li, Yan Huang, Xia Wang1, Guohua Yang, Zhi Jiang, Junyi Wang, Nan Qin, Li Li , Jingxiang Li, Lars Bolund, Karsten Kristiansen, Gane Ka-Shu Wong, Maynard Olson, Xiuqing Zhang, Songgang Li, Huanming Yang, Jian Wang*, Jun Wang*, The sequence and de novo assembly of the giant panda genome, Nature, 2009, 463(7279): 311

6.Sanwen Huang#*, Ruiqiang Li#, Zhonghua Zhang#, Li Li#, Xingfang Gu#, Wei Fan#, William J Lucas#, Xiaowu Wang, Bingyan Xie, Peixiang Ni, Yuanyuan Ren, Hongmei Zhu, Jun Li, Kui Lin, Weiwei Jin, Zhangjun Fei, Guangcun Li, Jack Staub, Andrzej Kilian, Edwin A G van der Vossen, Yang Wu, Jie Guo, Jun He, Zhiqi Jia, Yi Ren, Geng Tian, Yao Lu, Jue Ruan, Wubin Qian, Mingwei Wang,  Quanfei Huang, Bo Li, Zhaoling Xuan, Jianjun Cao, Asan, Zhigang Wu, Juanbin Zhang, Qingle Cai,  Yinqi Bai, Bowen Zhao, Yonghua Han, Ying Li, Xuefeng Li, Shenhao Wang, Qiuxiang Shi, Shiqiang Liu,  Won Kyong Cho, Jae-Yean Kim, Yong Xu, Katarzyna Heller-Uszynska, Han Miao, Zhouchao Cheng, Shengping Zhang, Jian Wu, Yuhong Yang, Houxiang Kang, Man Li, Huiqing Liang, Xiaoli Ren,  Zhongbin Shi, Ming Wen, Min Jian, Hailong Yang, Guojie Zhang, Zhentao Yang, Rui Chen, Shifang Liu, Jianwen Li, Lijia Ma, Hui Liu, Yan Zhou, Jing Zhao, Xiaodong Fang, Guoqing Li, Lin Fang,  Yingrui Li, Dongyuan Liu, Hongkun Zheng, Yong Zhang, Nan Qin, Zhuo Li, Guohua Yang,  Shuang Yang, Lars Bolund, Karsten Kristiansen, Hancheng Zheng, Shaochuan Li, Xiuqing Zhang, Huanming Yang, Jian Wang, Rifei Sun, Baoxi Zhang, Shuzhi Jiang, Jun Wang*, Yongchen Du*, Songgang Li*, The genome of the cucumber, Cucumis sativus L, Nature Genetics, 2009, 41(12): 1275

通讯作者论文

1.Peng Huang#, Yan Zhang#, Kangpeng Xiao#, Fan Jiang#, Hengchao Wang, Dazhi Tang, Dan Liu, Bo Liu, Yisong Liu, Xi He, Hua Liu, Xiubin Liu, Zhixing Qing, Conghui Liu, Jialu Huang, Yuwei Ren, Long Yun, Lijuan Yin, Qian Lin, Cheng Zeng, Xiaogang Su, Jingyang Yuan, Li Lin, Nanxi Hu, Hualiang Cao, Sanwen Huang, Yuming Guo*, Wei Fan* and Jianguo Zeng*. The chicken gut metagenome and the modulatory effects of plant-derived benzylisoquinoline alkaloids, Microbiome, 2018 ,6: 211

2.Wenhui Li#, Bo Liu#, Yang Yang#, Yuwei Ren#, Shuai Wang#, Conghui Liu#, Nianzhang Zhang, Zigang Qu, Wanxu Yang, Yan Zhang, Hongbing Yan, Fan Jiang, Li Li, Shuqu Li, Wanzhong Jia, Hong Yin, Xuepeng Cai, Tao Liu, Donald P. McManus*, Wei Fan*, and Baoquan Fu*. The genome of tapeworm Taenia multiceps sheds light on understanding parasitic mechanism and control of coenurosis disease, DNA Research, 2018, 25(5): 499-510

3.Conghui Liu#, Yan Zhang#, Yuwei Ren#, Hengchao Wang, Shuqu Li, Fan Jiang, Lijuan Yin, Xi Qiao , Guojie Zhang, Wanqiang Qian, Bo Liu* and Wei Fan*. The genome of the golden apple snail Pomacea canaliculata provides insight into stress tolerance and invasive adaptation, GigaScience, 2018, 7: 1-13

4.Fan Jiang#, Wangmu Danzeng#, Yuming Zhang, Yan Zhang, Li Jiang, Jia Liu, Lu Lu, Wei Fan*, Fang Peng*, Hymenobacter rubripertinctus sp. nov., isolated from Antarctic tundra soil, International Journal of Systematic and Evolutionary Microbiology, 2018, 68(02): 663-668

5.Conghui Liu#, Bo Liu, Yan Zhang, Fan Jiang, Yuwei Ren, Shuqu Li, Hengchao Wang, Wei Fan*, Ancient horizontally transferred genes in the genome of California two-spot octopus, Octopus bimaculoides, Gene, 2018, 667: 34-44

6.Zhenyu Li#, Yanxiang Chen#, Desheng Mu#, JianyingYuan,Yujian Shi, Hao Zhang, Jun Gan,Nan Li, Xuesong Hu, Binghang Liu, BichengYang*, Wei Fan*, Comparison of the two major classes of assembly algorithms: overlap-layout-consensus and de-bruijn-graph, Ima Journal of Management Mathematics, 2012, 1(1): 25-37

7..Xuesong Hu#, Jianying Yuan#, Yujian Shi1#, Jianliang Lu#, Binghang Liu, Zhenyu Li, Yanxiang Chen, Desheng Mu, Hao Zhang, Nan Li, Zhen Yue, Fan Bai, Heng Li and Wei Fan*, pIRS: Profile-based Illumina pair-end reads simulator, Bioinformatics, 2012, 28(11): 1533-1535

既非第一作者又非通讯作者论文

1.Guangmei Yan#, Guojie Zhang#, Xiaodong Fang#, Yanfeng Zhang#, Cai Li#, Fei Ling#, David N Cooper, Qiye Li, Yan Li, Alain J van Gool, Hongli Du, Jiesi Chen, Ronghua Chen, Pei Zhang, Zhiyong Huang, John R Thompson, Yuhuan Meng, Yinqi Bai, Jufang Wang, Min Zhuo, Tao Wang, Ying Huang, Liqiong Wei, Jianwen Li, Zhiwen Wang, Haofu Hu, Pengcheng Yang, Liang Le, Peter D Stenson, Bo Li, Xiaoming Liu, Edward V Ball, Na An, Quanfei Huang, Yong Zhang, Wei Fan, Xiuqing Zhang, Yingrui Li, Wen Wang, Michael G Katze, Bing Su, Rasmus Nielsen, Huanming Yang,  Jun Wang, Xiaoning Wang*, Jian Wang*, Genome sequencing and comparison of two nonhuman primate animal models, the cynomolgus and Chinese rhesus macaques, Nature Biotechnology, 2011, 29(11): 1019-U89

2.Qingyou Xia#, Yiran Guo#, Ze Zhang#, Dong Li#, Zhaoling Xuan#, Zhuo Li#, Fangyin Dai, Yingrui Li, Daojun Cheng, Ruiqiang Li, Tingcai Cheng, Tao Jiang, Celine Becquet, Xun Xu, Chun Liu, Xingfu Zha, Wei Fan, Ying Lin, Yihong Shen, Lan Jiang, Jeffrey Jensen, Ines Hellmann, Si Tang, Ping Zhao, Hanfu Xu, Chang Yu, Guojie Zhang, Jun Li, Jianjun Cao, Shiping Liu, Ningjia He, Yan Zhou, Hui Liu, Jing Zhao, Chen Ye, Zhouhe Du, Guoqing Pan, Aichun Zhao, Haojing Shao, Wei Zeng, Ping Wu, Chunfeng Li, Minhui Pan, Jingjing Li, Xuyang Yin, Dawei Li, Juan Wang, Huisong Zheng, Wen Wang, Xiuqing Zhang, Songgang Li, Huanming Yang, Cheng Lu, Rasmus Nielsen, Zeyang Zhou, Jian Wang, Zhonghuai Xiang*, Jun Wang*, Complete Resequencing of 40 Genomes Reveals Domestication Events and Genes in Silkworm (Bombyx), Science, 2009, 326(5951): 433-436

3.Jun Wang#, Wei Wang#, Ruiqiang Li#, Yingrui Li#, Geng Tian, Laurie Goodman, Wei Fan, Junqing Zhang, Jun Li, Juanbin Zhang, Yiran Guo, Binxiao Feng, Heng Li1, Yao Lu, Xiaodong Fang, Huiqing Liang, Zhenglin Du, Dong Li, Yiqing Zhao, Yujie Hu, Zhenzhen Yang, Hancheng Zheng, InesHellmann, MichaelInouye, JohnPool, XinYi, JingZhao, JinjieDuan, YanZhou, JunjieQin, LijiaMa, Guoqing Li, Zhentao Yang, Guojie Zhang, Bin Yang, Chang Yu, Fang Liang, Wenjie Li, Shaochuan Li, DaweiLi, PeixiangNi, JueRuan, QibinLi, HongmeiZhu, DongyuanLiu, ZhikeLu, NingLi, Guangwu Guo, Jianguo Zhang, Jia Ye, Lin Fang, Qin Hao, Quan Chen, Yu Liang, Yeyang Su, A. san, Cuo Ping, Shuang Yang, Fang Chen, Li Li, Ke Zhou, Hongkun Zheng, Yuanyuan Ren, Ling Yang, Yang Gao, Guohua Yang, Zhuo Li, Xiaoli Feng, Karsten Kristiansen, Gane Ka-Shu Wong, Rasmus Nielsen, Richard Durbin, Lars Bolund1, Xiuqing Zhang, Songgang Li, Huanming Yang*, Jian Wang*, The diploid genome sequence of an Asian individual, Nature, 2008, 456(7218): 60-U1

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