徐书华

发布时间:2021-07-09浏览次数:14940

教师基本信息:

姓名:徐书华

职称:特聘教授(二级)

职务:进化生物学中心主任

电子邮箱xushua@fudan.edu.cn

办公地点:生命科学学院C611

办公电话:021-31246617

个人网页/课题组主页:https://pog.fudan.edu.cn/#/home (复旦)http://www.picb.ac.cn/PGG/(中科院)


研究方向:群体组学/人类遗传/分子进化/生物信息学/计算生物学


个人简介:

徐书华,无党派人士;2006年博士毕业于复旦大学,同年入职中科院-马普学会计算生物学伙伴研究所,历任助理研究员、副研究员、研究员;2009年建立群体基因组学研究组(PGG);2012-2018年担任德国马普学会和中科院共同支持的青年科学家小组组长;2013年入选首批万人计划青年拔尖人才;2015年获国家杰出青年基金;2016年入选上海市优秀学术带头人;2018年入选科技部中青年科技创新领军人才;2019年获英国皇家学会牛顿高级访问学者基金资助;2021年入选国家万人计划科技领军人才。20217月入职复旦大学任特聘教授,建立人类群体组学实验室(POG)。兼任上海市遗传学会理事长、中国遗传学会常务理事、上海市人类学会常务理事;兼任多个SCI学术期刊编委如JGG(中国)、Molecular Genetics and Genomics (德国)共同主编、Hereditas (英国)BMC Genetics (英国) Section EditorBMC Genomic Data (英国) 资深编辑。长期致力于人类群体基因组学研究,发展和运用群体基因组学方法和计算生物学手段,将群体遗传学和分子进化理论应用于适应性演化和疾病发生机制研究;在Nature, Science, Cell, PNAS, Cell Sys., Nat Genet, Nat Commun, Genome Biol, AJHG, NAR, NSR, Gut, Genome Res, MBE等期刊发表SCI收录学术论文100多篇、被引用8000多次。成果入选F1000优秀论文、期刊“亮点论文”、ScienceScientific American等专文报道。曾获中科院青年科学家奖、中科院院长奖(导师)、教育部自然科学一等奖、国家自然科学二等奖等。

Dr. Shuhua Xu is professor of human population genetics and Principal Investigator of Population Omics Group at Fudan University. He joined Chinese Academy of Sciences (CAS) and Max-Planck Society Partner Institute for Computational Biology (PICB) in 2006 after he received his PhD at Fudan University. He was appointed the position of Principal Investigator in 2009 and led the Population Genomics Group (PGG). He was appointed the position of Max-Planck Independent Research Group Leader in 2011, and supported by both Max-Planck and CAS from 2012 to 2018. He is currently holding a Distinguished Professorship at Fudan University and a Distinguished Adjunct Professorship at ShanghaiTech University, China. The Population Omics Group led by Dr. Xu is using computational approaches and developing new methods to dissect genetic architecture of human populations, quantitatively characterize their admixture features, and reveal their migration history and adaptive divergence. Dr. Xu has authored many scientific papers published in Nature, Science, Cell, PNAS, Nature Genetics, Nature Communications,Genome Biology, The American Journal of Human Genetics, Nucleic Acids Research, Genome Research, Molecular Biology and Evolution, the PLoS and the BMC series. Dr. Xu serves as Editorial Board member of several international peer-reviewed journals such as JGG, Hereditas, Human Genomics, Molecular Genetics and Genomics (co-Editor-in-Chief), Frontier in Genetics, Scientific Reports, BMC Genetics (Section Editor), BMC Genomic Data (Senior Editor).


授课情况:

  1. Human Evolutionary Genetics(本科生荣誉课程,课程代码:BIOL130073h)64学时)

  2. Human Evolutionary Genetics(研究生课程,课程代码:BIOL620079)32学时)

  3. 《基因组学》(本科生课程,课程代码:BIOL130037.01)(32学时)

  4. 《基因组学》(研究生课程,课程代码:BIOL820005)(48学时)

  5. 《进化生物学》(研究生课程,课程代码:BIOL130074)(32学时)

  6. 《人类表型组学》(课程代码:BIOL130180.01 & BIOL737008.01 (G))(64学时)


招生专业:生物信息学/遗传学/人类生物学


科研项目:

  • 国家重点研发计划(批准号:2023YFC2605400);重大病毒病的易感性机制及筛查关键技术研究; 2023.11-2026.10;项目负责人:徐书华(在研)。

  • 国家自然科学基金—基础科学中心项目(批准号:32288101);低压低氧环境下人类复杂性状的表型组分析与系统解构; 2023.1-2027.12;骨干:徐书华(在研)。

  • 国家自然科学基金—重点项目(批准号:32030020);我国精准医学的群体基因组学基础理论分析与应用研究; 2021.1-2025.12;负责人:徐书华(在研)。

  • 国家自然科学基金—专项项目(批准号:32041008);新型冠状病毒的人群遗传易感性研究和遗传筛查体系构建;2020.3-2022.3;负责人:徐书华(结题)。

  • 英国皇家学会(The Royal Society)— Newton Advanced Fellowship —(批准号:NAF\R1\191094);Population genomic analysis of diverse indigenous East and Southeast Asian peoples2019.3-2023.12;负责人:徐书华(结题)。

  • 中科院前沿科学重点项目(批准号:QYZDJ-SSW-SYS009);人群混合驱动遗传负荷动态演化的机制研究;2016.1-2020.12;负责人:徐书华(结题)。

  • 国家重点研发计划(批准号:2016YFC0906403; 建立精神分裂症个体化诊疗方案及开发相应的精准检测技术; 2016.7-2020.12;课题负责人:徐书华(结题)。

  • 国家自然科学基金—重大研究计划—集成项目(批准号:91731303);不同时期遗传混合对东亚、东南亚等地区人群基因多样性的影响及其适应机制;2018.1-2019.12;负责人:徐书华(结题)。

  • 中国科学院—先导专项B类— “动物复杂性状的进化解析与调控”;第四项目:复杂性状形成与演化的进化驱动力(批准号:XDB13040100);2014.7-2019.6;负责人:徐书华(结题)。

  • 国家杰出青年基金(批准号:31525014);群体基因组学;2016.1-2020.12;负责人:徐书华(结题)。



获奖情况:

  • 2021年度上海市生物信息学会杰出贡献奖(2021

  • Journal of Genetics and Genomics 2020年度优秀编委奖(2020

  • 遗传与发育协同创新中心2019年度“十大科技进展”(2020

  • 2019年度中国生物信息学十大进展(2020

  • 2019年度中国生物信息学十大数据库(2020

  • 教育部自然科学一等奖(第5完成人)(2018

  • 中国科学院青年创新促进会(首届)“优秀会员”(2015

  • 国家自然科学二等奖(第2完成人)(2015

  • 中国科学院上海分院“青年五四奖章”(2015

  • 上海市遗传学会杰出贡献奖(2015

  • 中国科学院青年创新促进会2012-2013年度“优秀会员”(2013

  • 中科院青年科学家奖(2012

  • 中科院上海生科院-美国礼来公司优秀毕业论文导师奖(2012

  • 中科院上海分院第三届杰出青年科技人才奖(2012

  • 教育部自然科学奖(一等)(第2完成人)(2012

  • 上海市科技启明星(2011

  • 全国百篇优秀博士学位论文(2011

  • 法国赛诺菲-安万特-上海生科院青年人才奖(2009

  • 日本明治乳业生命科学奖(2009

  • 中国科学院卢嘉锡青年人才奖(2009


代表性论文和论著:

  1. Yang Gao#, Xiaofei Yang#, Hao Chen#, Xinjiang Tan#, Zhaoqing Yang#, Lian Deng#, Baonan Wang, Shuang Kong,Songyang Li,Yuhang Cui,Chang Lei,Yimin Wang, Yuwen Pan, Sen Ma, Hao Sun, Xiaohan Zhao, Yingbing Shi,Ziyi Yang,Dongdong Wu, Shaoyuan Wu, Xingming Zhao, Binyin Shi, Li Jin, Zhibin Hu,Chinese Pangenome Consortium (CPC), Yan Lu*, Jiayou Chu*, Kai Ye*, Shuhua Xu*.A Pangenome Reference of 36 Chinese populations. Nature. 2023. 619:112–121.

  2. Zhilin Ning#, Xinjiang Tan#, Yuan Yuan#, Ke Huang, Yuwen Pan, Lei Tian, Yan Lu, Xiaoji Wang, Ruicheng Qi, Dongsheng Lu, Yajun Yang, Yaqun Guan, Dolikun Mamatyusupu, Shuhua Xu*. Expression profiles of East-West highly differentiated genes in Uyghur genomes. National Science Review. 2023. 10:nwad077.

  3. Xiaohan Zhao, Shuhua Xu, Sen Ma, Baonan Wang, Xuetong Jiang, Shuhua Xu*. PGG.MHC: Toward understanding the diversity of major histocompatibility complexes in human populations. Nucleic Acids Research.2022. 51(D1):D1102-D1108.

  4. Yimin Wang, Yunchao Ling, Jiao Gong, Xiaohan Zhao, Hanwen Zhou, Bo Xie, Haiyi Lou, Xinhao Zhuang, Li Jin, Shaohua Fan*, Guo-Qing Zhang*, Shuhua Xu*. PGG.SV: a whole-genome-sequencing-based structural variant resource and data analysis platform. Nucleic Acids Research.2022. 51(D1):D1109–D1116.

  5. Rui Zhang,Xumin Ni, Kai Yuan, Yuwen Pan, Shuhua Xu*. MultiWaverX: modeling latent sex-biased admixture history. Briefings in Bioinformatics. 2022. 23(5):bbac179.

  6. Yuwen Pan, Panhong Liu, Fang Wang, Peng Wu, Fanjun Cheng, Xin Jin, Shuhua Xu*. Lineage-specific positive selection on ACE2 contributes to the genetic susceptibility of COVID-19. National Science Review. 2022. 9(9):nwac118.

  7. Haiyi Lou#*, Bo Xie#, Yimin Wang#, Yang Gao, Shuhua Xu*. Improved NGS variant calling tool for the PRSS1–PRSS2 locus. Gut. 2022. 72(1):210-212.

  8. Yuwen Pan#, Chao Zhang#, Yan Lu#, Zhilin Ning, Dongsheng Lu, Yang Gao, Xiaohan Zhao, Yajun Yang, Yaqun Guan, Dolikun Mamatyusupu and Shuhua Xu*. Genomic diversity and post-admixture adaptation in the Uyghurs. National Science Review. 2022. 9(3):nwab124.

  9. Haiyi Lou#*, Yang Gao#, Bo Xie#, Yimin Wang#, Haikuan Zhang, Miao Shi, Sen Ma, Xiaoxi Zhang, Chang Liu, Shuhua Xu*. Haplotype-resolved de novo assembly of a Tujia genome suggests the necessity for high-quality population-specific genome references. Cell Systems. 2022. 13(4):321-333.

  10. Lian Deng#, Yuwen Pan#, Yinan Wang, Hao Chen, Kai Yuan, Sihan Chen, Dongsheng Lu, Yan Lu, Siti Shuhada Mokhtar, Thuhairah Abdul Rahman, Boon-Peng Hoh, Shuhua Xu*. Genetic connections and convergent evolution of tropical indigenous peoples in Asia. Molecular Biology and Evolution. 2022. 39(2):msab361.

  11. Kai Yuan#, Xumin Ni#, Chang Liu#, Yuwen Pan#, Lian Deng#, Rui Zhang#, Yang Gao, Xueling Ge, Jiaojiao Liu, Xixian Ma, Haiyi Lou, Taoyang Wu and Shuhua Xu*. Refining models of archaic–modern human admixture in Eurasia with ArchaicSeeker 2.0. Nature Communications. 2021. 12:6232.

  12. Xixian Ma#, Wenjun Yang#, Yang Gao, Yuwen Pan, Yan Lu, Hao Chen, Dongsheng Lu, Shuhua Xu*. Genetic origins and sex-biased admixture of the Huis. Molecular Biology and Evolution. 2021. 38(9):3804-3819.

  13. Yang Gao#, Chao Zhang#, Liyun Yuan#, YunChao Ling, Xiaoji Wang, Chang Liu, Yuwen Pan, Xiaoxi Zhang, Xixian Ma, Yuchen Wang, Yan Lu, Kai Yuan, Wei Ye, Jiaqiang Qian, Huidan Chang, Ruifang Cao, Xiao Yang, Ling Ma, Yuanhu Ju, Long Dai, Yuanyuan Tang, The Han100K Initiative, Guoqing Zhang, Shuhua Xu*.  PGG.Han: The Han Chinese Genome Database and Analysis Platform. Nucleic Acids Research2020, 48(D1):D971-D976.

  14. Chao Zhang#, Yang Gao#, Zhilin Ning#, Yan Lu#, Xiaoxi Zhang, Jiaojiao Liu, Bo Xie, Zhe Xue, Xiaoji Wang, Kai Yuan, Xueling Ge, Yuwen Pan, Chang Liu, Lei Tian, Yuchen Wang, Dongsheng Lu, Boon-Peng Hoh, Shuhua Xu*.  PGG.SNV: Understanding the evolutionary and medical implications of human single nucleotide variations in diverse populations. Genome Biology2019, 20:215.

  15. Lian Deng#, Chao Zhang#, Kai Yuan#, Yang Gao#, Yuwen Pan, Xueling Ge, Yaoxi He, Yuan Yuan, Yan Lu, Xiaoxi Zhang, Hao Chen, Haiyi Lou, Xiaoji Wang, Dongsheng Lu, Jiaojiao Liu, Lei Tian, Qidi Feng, Asifullah Khan, Yajun Yang, Zi-Bing Jin, Jian Yang, Fan Lu, Jia Qu, Longli Kang, Bing Su, Shuhua Xu*. Prioritizing natural selection signals from the deep-sequencing genomic data suggests multi-variant adaptation in Tibetan highlanders. National Science Review2019, 6(6):1201–1222.

  16. Chao Zhang#, Yang Gao#, Jiaojiao Liu, Zhe Xue, Yan Lu, Lian Deng, Lei Tian, Qidi Feng, Shuhua Xu*.  PGG.Population: a database for understanding the genomic diversity and genetic ancestry of human populations. Nucleic Acids Research2018, 46:D984–D993.

  17. Chao Zhang#, Yan Lu#, Qidi Feng#, Xiaoji Wang#, Haiyi Lou, Jiaojiao Liu, Zhilin Ning, Kai Yuan, Yuchen Wang, Ying Zhou, Lian Deng, Lijun Liu, Yajun Yang, Shilin Li, Lifeng Ma, Zhiying Zhang, Li Jin, Bing Su, Longli Kang, Shuhua Xu*. Differentiated demographic histories and local adaptations between Sherpas and Tibetans. Genome Biology. 2017, 18:115.

  18. Dongsheng Lu, Haiyi Lou, Kai Yuan, Xiaoji Wang, Yuchen Wang, Chao Zhang, Yan Lu, Xiong Yang, Lian Deng, Ying Zhou, Qidi Feng, Ya Hu, Qiliang Ding, Yajun Yang, Shilin Li, Li Jin, Yaqun Guan, Bing Su, Longli Kang, and Shuhua Xu*. Ancestral Origins and Genetic History of Tibetan Highlanders. American Journal of Human Genetics.2016, 99:580-594.

  19. Haiyi Lou, Yan Lu, Dongsheng Lu, Ruiqing Fu, Xiaoji Wang, Qidi Feng, Sijie Wu, Yajun Yang, Shilin Li, Longli Kang, Yaqun Guan, Boon-Peng Hoh, Yeun-Jun Chung, Li Jin, Bing Su, Shuhua Xu*.A 3.4-kb Copy-Number Deletion nearEPAS1Is Significantly Enriched in High-Altitude Tibetans but Absent from the Denisovan Sequence.American Journal of Human Genetics.2015, 97(1):54-66.

  20. Wenfei Jin, Sijia Wang, Haifeng Wang, Li Jin, Shuhua Xu*. Exploring Population Admixture Dynamics Using Empirical and Simulated Genome-Wide Distribution of Ancestral Chromosomal Segments. American Journal of Human Genetics.2012,91:849-862.

  21. Shuhua Xu*, Irina Pugach, Mark Stoneking, Manfred Kayser, Li Jin, The HUGO Pan-Asian SNP Consortium. Genetic Dating Indicates that the Asian-Papuan Admixture through Eastern Indonesia Corresponds to the Austronesian Expansion. Proceedings of the National Academy of Sciences. 2012,109(12):4574-4579.

  22. The HUGO Pan-Asian SNP Consortium (Li Jin*, Edison T. Liu*, Mark Seielstad*, Shuhua Xu*; 93 authors from 10 countries).Mapping Genetic Diversity in Asia. Science. 2009, 326:1541-1545.