个人简介
李永生，男，博士，教授，博士/硕士生导师。海南省千人专项领军人才入选者，海南省拔尖人才，海南省“双百人才团队”后备带头人。目前主持国家自然科学基金3项、省自然科学基金2项，中国博士后特别资助和面上项目等10余项。主要研究成果获中华医学奖三等奖、省政府科学技术二等奖、省高校科学技术一等奖和二等奖等，被评为省青年科技奖、校级十大杰出青年、校级科技人才奖、校级优秀科技工作者等荣誉称号。在美国MD安德森癌症研究中心及德州大学奥斯汀分校访问学习3年，获得美国MD安德森癌症研究中心授予的Harold C. and Mary L. Daily Endowment Fund和Ben F. Love Fellowship in Innovative Cancer Therapies奖项。
长期从事医学大数据生物信息学研究，深入研究人类重大疾病中基因型-表型关联这一基本而关键的科学问题，特别关注遗传变异分子标记识别及功能解析、非编码RNA表达调控机制和功能的研究。研究成果发表于《Nature Reviews Genetics》（封面文章）、《Cancer Cell》、《Trends in Biochemical Sciences》（封面文章）、《Hepatology》、《Nature Communications》（ESI高被引论文）、《Nucleic Acids Research》、《Molecular Cancer》、《Cell Reports》、《Cancer Research》、《Briefings In Bioinformatics》等国际著名生命科学杂志，发表SCI论文60余篇，累计SCI影响因子400余点，H-index达到26, 谷歌学术总引用次数达2000余次，单篇最高引用260余次。
作为主要参加者编写国家级规划教材《生物信息学》（第二版）、人民卫生出版社教程《非编码微小分子RNA与心脏疾病》，受邀编写Springer出版社的《Systems Biology in Cancer Research and Drug Discovery》、《Functional Genomics》（第三版）、《Non-coding RNAs in Complex Diseases》及《Computational Epigenetics and Diseases》。担任《Frontiers in oncology》副主编，《Frontiers in genetics》、《Computational Biology and Bioinformatics》杂志编委，《Nucleic Acids Research》、《Life Sciences》、《Briefings In Bioinformatics》、《Molecular Therapy-Nucleic Acids》、《Journal of Molecular Biology》、《Biomedical Reports》、《Nanoscale》、《International Journal of Biological Sciences》等国际杂志审稿专家。
?教育经历:
2009.9 - 2014.6, 哈尔滨医科大学, 生物物理学, 博士
2004.9 - 2009.6, 哈尔滨医科大学, 生物信息, 学士, 大学本科
?科研与学术工作经历:
2019.12 – 至今，海南医学院，生物医学信息与工程学院，教授
2015.9 – 2019.12, 哈尔滨医科大学, 计算生物学教研室, 副教授
2014.7 - 2015.9, 哈尔滨医科大学, 计算生物学教研室, 讲师
?留学经历:
2018.8 – 2019.10，美国德州大学奥斯汀分校，Dell医学院，四级研究员
2016.9 – 2018.7, 美国德州大学MD安德森癌症研究中心，系统生物学系，博士后
?主持及参与科研项目情况:
1. 国家自然科学基金面上项目，恶性肿瘤关键遗传变异介导的RNA结合蛋白调控网络扰动模型构建与分析（31970646），2020年1月-2023年12月，项目负责人，在研；
2. 国家自然科学基金地区项目，基于多源数据融合的肿瘤免疫关键调控因子识别及作用机制研究（32060152），2021年1月-2024年12月，项目负责人，在研；
3. 海南省自然科学基金面上项目，基于多层次功能网络扰动的癌症热点突变优化筛选及功能预测模型研究（820MS053），2020年12月-2023年12月，项目负责人，在研；
4. 国家自然科学基金青年项目，融合多组学数据优化筛选恶性肿瘤中表观失调非编码RNA及其功能研究（61502126）， 2016年1月-2018年12月，项目负责人，结题；
5. 中国博士后特别资助基金，复杂疾病中长链非编码RNA的识别及其调控机制研究（2016T90309），2016年6月-2019年4月，项目负责人，结题；
6. 中国博士后面上项目，恶性肿瘤表观失调长链非编码RNA的鉴定及其功能研究（2015M571436），2015年5月-2019年4月，项目负责人，结题；
7. 黑龙江省自然科学基金青年项目，恶性胶质瘤进展相关非编码RNA调控网络及耦合模块挖掘算法研究（QC2015020），2015年7月-2018年7月，项目负责人，结题；
8. 黑龙江省博士后基金，整合表观组和转录组识别乳腺癌亚型相关的非编码RNA标记（LBH-Z14134），2014年12月-2019年4月，项目负责人，结题；
9. 黑龙江省普通本科高等学校青年创新人才培养计划，基于RNA 结合蛋白调控网络扰动分析优化恶性肿瘤中关键调控因子，2017年10月-2019年12月，项目负责人，结题；
10. 哈尔滨医科大学于维汉院士杰出青年基金，2017年8月-2019年12月，项目负责人，结题；
11. 国家自然科学基金青年项目，基于多组学数据融合的泛癌中非编码RNA crosstalk模式研究（31601065），2017年1月-2019年12月，主要参与人，结题；
12. 国家自然科学基金重点项目，EGFR过表达协同PTEN缺失介导的免疫炎性网络促进胶质母细胞瘤恶性进展的分子机制（91229112），2013年1月-2015年12月，主要参与人，结题；
13. 国家自然科学基金培育项目，心血管疾病风险循环非编码RNA（miRNA/LncRNA)识别及其协同调控风险通路功能分析 (91439117) ，2015年1月-2017年12月，主要参与人，结题；
14. 哈尔滨医科大学伍连德青年科学基金：基于miRNA 协同调控网络的疾病miRNA和miRNA-mRNA耦合模块挖掘算法研究（WLD-QN1107），主要参与人，结题；
15. 黑龙江省研究生创新基金重点项目：融合甲基化组和互作组解析癌症关键的基因和功能通路（YJSCX2012-196HLJ），负责人，结题；
?教学课题及教学论文：
1. 海南医学院2020年校级教育科研课题，《海南自贸港建设背景下生物信息学专业课程体系改革的研究与实践》，2020年8月-2022年7月，主持，在研；
2. 《基于智慧教学+CDIO理念的大学生数学建模培训实践与研究》， 2019年6月-2021年6月，第2参与人，在研；
3. 《多学科交叉融合的生物信息学本科专业创新教学体系构建研究与实践》，2017年6月-2020年12月，第1参与人，在研；
4. 《面向生物医学大数据的生物信息专业教学体系改革的研究》，2019年6月-2020年12月，第1参与人，在研；
5. 《新医科背景下构建多学科交叉融合的生物信息学专业特色课程体系》，高教学刊，2020，徐娟，李永生，张云鹏，李霞，陈丽娜
6. 《关于生物分子网络课程教学模式的探讨》，科技创新导报，2017，徐娟，李永生，李霞，邵婷婷
7. 《关于生物信息学专业本科生培养方案改革的思考》，赤子，2017，徐娟，李永生，邵婷婷
8. 《任务教育法在医学院校计算机程序语言教学中的实践与探索》，高等医学教育，2015，李永生，徐娟
?个人奖励情况:
1.2021年海南省千人专项领军人才入选者；
2.2020年海南省拔尖人才；
3.2019年第十四届黑龙江省青年科技奖；
4.2019年哈尔滨医科大学青年科技人才奖；
5.2020年美国大学生数学建模竞赛二等奖（指导教师）；
6.2019年第九届MathorCup高校数学建模竞赛二等奖（指导教师）；
7.2019年黑龙江省数学建模竞赛二等奖（指导教师）；
8.2018年哈尔滨医科大学十大杰出青年专家；
9.2018年美国MD安德森癌症研究中心Ben F. Love Fellowship in Innovative Cancer Therapies奖；
10.Ebiomedicine杂志杰出审稿专家，2018年8月；
11.2017年美国MD安德森癌症研究中心The Harold C. and Mary L. Daily Endowment Fund奖；
12.Life Science杂志杰出审稿专家，2016年11月；
13.2015年哈尔滨医科大学优秀科技工作者；
14.2014年哈尔滨医科大学生物信息学院优秀科技工作者；
15.2014年黑龙江省优秀毕业生；
16.2015年国家研究生奖学金一等奖；
?科研奖励及软件著作权：
1.2019年度黑龙江省教学成果奖，“适应新医科发展理念，医工结合创办生物信息专业”，一等奖，排名第三；
2.2019年度哈尔滨医科大学教学成果奖，“适应新医科发展理念，医工结合创办生物信息专业”，一等奖，排名第三；
3.《基于生物数据融合的恶性肿瘤中miRNA-ceRNA复合协同调控模式的研究》，2019，黑龙江省高校科学技术奖，一等奖，排名第三；
4.《癌风险miRNA及协同调控风险通路(pathway)识别》， 2015，中华医学科技奖，三等奖，排名第六；
5.《癌风险miRNA及协同调控风险通路(pathway)识别方法研究》， 2015，黑龙江省政府科学技术奖（自然类），二等奖，排名第六；
6.《癌风险miRNA及协同调控风险通路(pathway)识别方法研究》， 2015，黑龙江省高校科学技术奖，二等奖，排名第六；
7.《恶性胶质瘤进展相关的miRNA识别以及功能分析》，哈尔滨市自然科学技术学术成果奖，排名第一，二等奖，2014-8
8.《基于miRNA-miRNA功能协同调控网络剖析疾病miRNA的拓扑特性》，哈尔滨市自然科学技术学术成果奖，排名第三，一等奖，2012-8
9.非编码RNA本体论软件, 2016R11L668233, 原始取得, 全部权利, 2015.9.22 (软件著作权)
?社会任职情况：
国家自然科学基金评审专家；中国抗癌协会肿瘤标志专业委员会委员；美国基因与癌症治疗协会会员；黑龙江省人工智能学会理事，中国计算机学会生物信息学专委会通讯委员；海南省免疫学会青年工作委员会副主任委员。
?发表文章列表：
1.Kang Xu#, Yangyang Cai#, Mengying Zhang#, Haozhe Zou, Zhenghong Chang, Donghao Li, Jing Bai*, Juan Xu*, Yongsheng Li*. Pan-cancer characterization of expression and clinical relevance of m6A-related tissue-elevated long non-coding RNAs. Molecular Cancer, 2021. (通讯作者，SCI影响因子15.302)
2.Junyi Li#, Tao Pan#, Liuxin Chen#, Qi Wang, Zhenghong Chang, Weiwei Zhou, Xinhui Li, Gang Xu, Xia Li*, Yongsheng Li*, Yunpeng Zhang*. Alternative splicing perturbation landscape identifies RNA binding proteins as potential therapeutic targets in cancer. Molecular Therapy: Nucleic Acids, 2021. (并列通讯作者，SCI影响因子7.032)
3.Ya Zhang#, Sicong Xu#, Gang Xu, Yueying Gao, Si Li, Ke Zhang, Zhanyu Tian, Jing Guo, Xia Li*, Juan Xu*, Yongsheng Li*. Dynamic Expression of m6A Regulators During Multiple Human Tissue Development and Cancers. Front Cell Dev Biol, 2021. (通讯作者，SCI影响因子5.201)
4.Yu Fu#, Yongsheng Li#, Ensong Guo#, Liang He#, Jia Liu, Bin Yang, Fuxia Li, Zizhuo Wang, Yuan Li, Rourou Xiao, Chen Liu, Yuhan Huang, Xue Wu, Funian Lu, Lixin You, Tianyu Qin, Chaolong Wang, Kezhen Li, Peng Wu*, Ding Ma*, Chaoyang Sun*, Gang Chen*. Dynamics and Correlation Among Viral Positivity, Seroconversion, and Disease Severity in COVID-19: A Retrospective Study. Annals of Internal Medicine, 2020. (并列第一作者，SCI影响因子21.317)
5.Yongsheng Li#, Brandon Burgman#, Ishaani S Khatri, Sairahul R Pentaparthi, Zhe Su, Daniel J McGrail, Yang Li, Erxi Wu, S Gail Eckhardt, Nidhi Sahni*, S Stephen Yi*. e-MutPath: computational modeling reveals the functional landscape of genetic mutations rewiring interactome networks. Nucleic Acids Research, 2020. (SCI影响因子11.501)
6.Jun Xiao#, Xiaoyan Jin#, Chunlong Zhang#, Haozhe Zou#, Zhenghong Chang, Nan Han, Xia Li*, Yunpeng Zhang*, Yongsheng Li*. Systematic analysis of enhancer regulatory circuit perturbation driven by copy number variations in malignant glioma. Theranostics, 2021. (通讯作者，SCI影响因子8.579)
7.Mengying Zhang#, Kang Xu#, Limei Fu#, Qi Wang, Zhenghong Chang, Haozhe Zou, Yan Zhang*, Yongsheng Li*. Revealing epigenetic factors of circRNA expression by machine learning in various cellular contexts. iScience, 2020. (通讯作者，SCI影响因子4.447)
8.Yongsheng Li#*, Tiantongfei Jiang#, Weiwei Zhou#, Junyi Li, Xinhui Li, Qi Wang, Xiaoyan Jin, Jiaqi Yin, Liuxin Chen, Yunpeng Zhang, Juan Xu*, Xia Li*. Pan-cancer characterization of immune-related lncRNAs identifies potential oncogenic biomarkers. Nature Communications, 2020. (第一作者，SCI影响因子12.121)
9.Yongsheng Li, Brandon Burgman, Daniel J McGrail, Ming Sun, Dan Qi, Sachet A Shukla, Erxi Wu, Anna Capasso, Shiaw-Yih Lin, Catherine J Wu, S Gail Eckhardt, Gordon B Mills, Bo Li*, Nidhi Sahni*, S Stephen Yi*. Integrated Genomic Characterization of the Human Immunome in Cancer. Cancer Research, 2020. (第一作者，SCI影响因子9.727)
10.Chunlong Zhang#, Ning Zhao#, Xue Zhang#, Jun Xiao, Junyi Li, Dezhong Lv, Weiwei Zhou, Yongsheng Li*, Juan Xu*, Xia Li*. SurvivalMeth: A Web Server to Investigate the Effect of DNA Methylation-related Functional Elements on Prognosis. Briefings in Bioinformatics, 2020 (并列通讯作者, SCI影响因子8.990)
11.Mengying Zhang#, Xiyun Jin#, Junyi Li, Yi Tian, Qi Wang, Xinhui Li, Juan Xu*, Yongsheng Li*, Xia Li*. CeRNASeek: an R package for identification and analysis of ceRNA regulation. Briefings in Bioinformatics, 2020 (并列通讯作者, SCI影响因子8.990)
12.Zishan Wang#, Jiaqi Yin#, Weiwei Zhou#, Jing Bai#, Yunjin Xie, Kang Xu, Xiangyi Zheng, Jun Xiao, Li Zhou, Xiaolin Qi*, Yongsheng Li*, Xia Li*, Juan Xu*. Complex impact of DNA methylation on transcriptional dysregulation across 22 human cancer types. Nucleic Acids Research, 2020. (共同通讯作者，SCI影响因子11.501)
13.Juan Xu#*, Tingting Shao#, Mingxu Song#, Yunjin Xie, Jialiang Zhou, Jiaqi Yin, Na Ding, Haozhe Zou, Yongsheng Li*, Jiwei Zhang*. MIR22HG acts as a tumor suppressor via TGFβ/SMAD signaling and facilitates immunotherapy in colorectal cancer. Molecular Cancer, 2020. (共同通讯作者，SCI影响因子15.302)
14.Jiwei Zhang#*, Shengli Li#, Lin Zhang, Juan Xu, Mingxu Song, Tingting Shao, Zhaohui Huang*, Yongsheng Li*. RBP EIF2S2 Promotes Tumorigenesis and Progression by Regulating MYC-Mediated Inhibition via FHIT-Related Enhancers. Molecular Therapy, 2020. (通讯作者，SCI影响因子8.986)
15.Dezhong Lv#, Kang Xu#, Xiyun Jin#, Junyi Li, Yuchen Shi, Mengying Zhang, Xiaoyan Jin, Yongsheng Li, Juan Xu*, Xia Li*. LncSpA: LncRNA Spatial Atlas of Expression across Normal and Cancer Tissues. Cancer Research, 2020. (SCI影响因子9.727)
16.Daniel J. McGrail#*, Jeannine Garnett#, JunYin, Hui Dai, David J.H.Shih, Truong Nguyen Anh Lam, Yang Li, Chaoyang Sun, Yongsheng Li, Rosemarie Schmandt, Ji Yuan Wu, Limei Hu, Yulong Liang, Guang Peng, Eric Jonasch, David Menter, Melinda S.Yates, Scott Kopetz, Karen H.Lu, Russell Broaddus, Gordon B.Mills, Nidhi Sahni*, Shiaw-Yih Lin*. Proteome Instability Is a Therapeutic Vulnerability in Mismatch Repair-Deficient Cancer. Cancer cell, 2020. (SCI影响因子26.602)
17.Hui Liu#, Tiantongfei Jiang#, Shuyuan Wang#, Xiang Chen, Xiaoyan Jin, Qi Wang, Xinhui Li, Jiaqi Yin, Tingting Shao, Yongsheng Li*, Juan Xu*, Qiong Wu*. A Novel Approach to Identify Enhancer lincRNAs by Integrating Genome, Epigenome, and Regulatome. Frontiers in Bioengineering and Biotechnology, 2019. (共同通讯作者，SCI影响因子5.112)
18.Yongsheng Li#, Yunpeng Zhang#, Xia Li*, Song Yi*, Juan Xu*. Gain-of-function mutations: an emerging advantage for cancer biology. Trends in Biochemical Science，2019. (第一作者，SCI影响因子16.889，封面文章)
19.Yongsheng Li#, Daniel J McGrail#, Juan Xu#, Junyi Li#, Ning‐Ning Liu, Ming Sun, Richard Lin, Rita Pancsa, Jiwei Zhang, Ju‐Seog Lee, Hui Wang, Gordon B Mills, Xia Li*, Song Yi*, Nidhi Sahni*. MERIT: Systematic analysis and characterization of Mutational Effect on RNA Interactome Topology. Hepatology, 2019. (第一作者，SCI影响因子14.971)
20.Yongsheng Li#*, Jun Xiao#, Jing Bai, Yi Tian, Yinwei Qu, Xiang Chen, Qi Wang, Xinhui Li, Yunpeng Zhang*, Juan Xu*. Molecular characterization and clinical relevance of m6A regulators across 33 cancer types, Molecular Cancer, 2019. (第一作者，SCI影响因子10.679)
21.Yongsheng Li, Daniel J. McGrail, Juan Xu, Gordon B. Mills, Nidhi Sahni*, Song Yi*. Gene Regulatory Network Perturbation by Genetic and Epigenetic Variation. Trends in Biochemical Science, 2018. (第一作者，SCI影响因子15.678)
22.Yongsheng Li#, Lili Li#, Zishan Wang#, Tao Pan, Nidhi Sahni, Xiyun Jin, Guangjuan Wang, Junyi Li, Xiangyi Zheng, Yunpeng Zhang*, Juan Xu*, Song Yi*, Xia Li*. LncMAP: Pan-cancer Atlas of long noncoding RNA-mediated transcriptional network perturbations. Nucleic Acids Research, 2018. (第一作者，SCI影响因子11.561)
23.Jianping Lu#, Juan Xu#, Junyi Li#, Tao Pan#, Jing Bai, Liqiang Wang, Xiyun Jin, Xiaoyu Lin, Yunpeng Zhang, Yongsheng Li*, Nidhi Sahni*, Xia Li*. FACER: comprehensive molecular and functional characterization of epigenetic chromatin regulators. Nucleic acids research, 2018. (共同通讯作者, SCI影响因子11.561)
24.Xiaoyu Lin#, Tiantongfei Jiang#, Jing Bai#, Junyi Li, Tianshi Wang, Jun Xiao, Yi Tian, Xiyun Jin, Tingting Shao, Juan Xu, Lingchao Chen*, Lihua Wang*, Yongsheng Li*. Characterization of transcriptome transition associates long noncoding RNAs with glioma progression. Molecular Therapy — Nucleic Acids, 2018. (通讯作者, SCI影响因子5.660)
25.Tingting Shao#, Guangjuan Wang#, Hong Chen#, Yunjin Xie#, Xiyun Jin, Jing Bai, Juan Xu, Xia Li, Jian Huang*, Yan Jin*, Yongsheng Li*. Survey of miRNA-miRNA cooperative regulation principles across cancer types. Briefings in Bioinformatics, 2018 (通讯作者, SCI影响因子6.302)
26.Yongsheng Li, Daniel J McGrail, Natasha Latysheva, Song Yi*, M Madan Babu*, Nidhi Sahni*. Pathway perturbations in signaling networks: Linking genotype to phenotype. Seminars in Cell and Developmental Biology, 2018. (第一作者，SCI影响因子6.138)
27.Song Yi#*, Shengda Lin#, Yongsheng Li#, Wei Zhao, Gordon B. Mills, Nidhi Sahni*. Functional variomics and network perturbation: connecting genotype to phenotype in cancer. Nature Reviews Genetics, 2017. (并列第一作者, SCI影响因子41.465，封面文章)
28.Yongsheng Li#, Xiyun Jin#, Zishan Wang, Lili Li, Hong Chen, Xiaoyu Lin, Song Yi*, Yunpeng Zhang*, Juan Xu*. Systematic review of computational methods for identifying miRNA-mediated RNA-RNA crosstalk. Briefings in Bioinformatics, 2017. (第一作者，SCI影响因子6.302)
29.Yongsheng Li#, Nidhi Sahni#*, Rita Pancsa, Daniel J Mcgrail, Juan Xu, Xu Hua, Jasmin Coulombe-Huntington, Michael Ryan, Boranai Tychhon, Dhanistha Sudhakar, Limei Hu, Michael Tyers, Xiaoqian Jiang, Shiaw-Yih Lin, M Madan Babu*, Song Yi*. Revealing the Determinants of Widespread Alternative Splicing Perturbation in Cancer. Cell Reports, 2017. (第一作者，SCI影响因子8.032)
30.Yongsheng Li#, Jinwen Zhang#, Caiqin Huo#, Na Ding, Junyi Li, Jun Xiao, Xiaoyu Lin, Benzhi Cai*, Yunpeng Zhang*, Juan Xu*. Dynamic Organization of lncRNA and Circular RNA Regulators Collectively Controlled Cardiac Differentiation in Humans. EBioMedicine, 2017. (第一作者，SCI影响因子 6.183)
31.Yongsheng Li#, Caiqin Huo#, Tao Pan#, Lili Li, Xiyun Jin, Xiaoyu Lin, Juan Chen, Jinwen Zhang, Zheng Guo*, Juan Xu*, Xia Li*. Systematic review regulatory principles of non-coding RNAs in cardiovascular diseases. Briefings in Bioinformatics, 2017. (第一作者，SCI影响因子6.302)
32.Chunjie Jiang#, Na Ding#, Junyi Li#, Xiyun Jin, Lili Li, Tao Pan, Caiqin Huo, Yongsheng Li*, Juan Xu*, and Xia Li*. Landscape of the long non-coding RNA transcriptome in human heart. Briefings in Bioinformatics, 2018.( 共同通讯作者，SCI影响因子6.302)
33.Yongsheng Li, Nidhi Sahni*, Song Yi*. Comparative analysis of protein interactome networks prioritizes candidate genes with cancer signatures. Oncotarget, 2016. (第一作者，SCI影响因子5.008)
34.Juan Xu#, Zishan Wang#, Shengli Li#, Juan Chen, Jinwen Zhang, Chunjie Jiang, Zheng Zhao, Jing Li*, Yongsheng Li*, Xia Li*. Combinatorial epigenetic regulation of non-coding RNAs has profound effects on oncogenic pathways in breast cancer subtypes. Briefings in Bioinformatics, 2016. (共同通讯作者，SCI影响因子5.134)
35.Juan Xu, Tingting Shao, Na Ding, Yongsheng Li*, Xia Li*. miRNA-miRNA crosstalk: From genomics to phenomics. Briefings in Bioinformatics, 2016. (共同通讯作者，SCI影响因子5.134)
36.Juan Xu#, Lin Feng#, Zujing Han#, Yongsheng Li#, Aiwei Wu, Tingting Shao, Na Ding, Lili Li, Wei Deng, Xuebing Di, Jian Wang, Lianfeng Zhang*, Xia Li*, Kaitai Zhang*, Shujun Cheng*. Extensive ceRNA-ceRNA interaction networks mediated by miRNAs regulate development in multiple rhesus tissues. Nucleic Acids Research, 2016. (共同第一作者，SCI影响因子11.561)
37.Juan Xu#, Yongsheng Li#, Jianping Lu#, Tao Pan, Na Ding, Zishan Wang, Tingting Shao, Jinwen Zhang, Lihua Wang*, Xia Li*. The mRNA related ceRNA–ceRNA landscape and significance across 20 major cancer types. Nucleic Acids Research, 2015. (共同第一作者, SCI影响因子11.561)
38.Yongsheng Li#, Shengli Li#, Juan Chen, Tingting Shao, Chunjie Jiang, Yuan Wang, Hong Chen, Juan Xu*, Xia Li*. Comparative epigenetic analyses reveal distinct patterns of oncogenic pathways activation in breast cancer subtypes. Human Molecular Genetics, 2014. (第一作者，SCI影响因子5.579)
39.Daniel J. McGrail, Lorenzo Federico, Yongsheng Li, Hui Dai, Yiling Lu, Gordon B. Mills, Song Yi*, Shiaw-Yih Lin*, Nidhi Sahni*. Multiomics analysis reveals neoantigen-independent immune cell infiltration in copy-number driven cancers. Nature Communications, 2018 (SCI影响因子12.353)
40.Yong Fang*, Daniel J. McGrail, Chaoyang Sun, Marilyne Labrie, Xiaohua Chen, Dong Zhang, Zhenlin Ju, Christopher P. Vellano, Yiling Lu, Yongsheng Li, Kang Jin Jeong, Zhiyong Ding, Jiyong Liang, Steven W. Wang, Hui Dai, Sanghoon Lee, Nidhi Sahni, Tae-beom Kim, Ken Chen, Imelda Mercado-Uribe, Shiaw-Yih Lin, Guang Peng, Shannon N. Westin, Jinsong Liu, Mark J O'Connor, Timothy A. Yap and Gordon B. Mills. Sequential therapy with PARP and WEE1 inhibitors minimizes toxicity while maintaining efficacy. Cancer cell, 2019. (SCI影响因子22.844, Feature Article)
41.Patrick Kwok-Shing Ng#, Jun Li#, Kang Jin Jeong#, Shan Shao, Hu Chen, Yiu Huen Tsang, Sohini Sengupta, Zixing Wang, Venkata Hemanjani Bhavana, Richard Tran, Stephanie Soewito, Darlan Conterno Minussi, Daniela Moreno, Kathleen Kong, Turgut Dogruluk, Hengyu Lu, Jianjiong Gao, Collin Tokheim, Daniel Cui Zhou, Amber M Johnson, Jia Zeng, Carman Ka Man Ip, Zhenlin Ju, Matthew Wester, Shuangxing Yu, Yongsheng Li, Christopher P Vellano, Nikolaus Schultz, Rachel Karchin, Li Ding, Yiling Lu, Lydia Wai Ting Cheung, Ken Chen, Kenna R Shaw, Funda Meric-Bernstam, Kenneth L Scott, Song Yi*, Nidhi Sahni*, Han Liang*, Gordon B. Mils. Systematic Functional Annotation of Somatic Mutations in Cancer. Cancer Cell, 2018. (SCI影响因子22.844)
42.Juan Chen#, Juan Xu#, Yongsheng Li#, Jinwen Zhang, Hong Chen, Jianping Lu, Zishan Wang, Xueying Zhao, Kang Xu, Yixue Li*, Yan Zhang*, Xia Li*. Competing endogenous RNA network analysis identifies critical genes among the different breast cancer subtypes. Oncotarget, 2016. (共同第一作者, SCI影响因子5.008)
43.Xiang Li#, Cuiying Liu#, Yongsheng Li, Juan Xu, Dongguo Li, Dong Han. Deep RNA sequencing elucidates microRNA-regulated molecular pathways in ischemic cardiomyopathy and nonischemic cardiomyopathy. Genetics and molecular research, 2016. (SCI影响因子0.765)
44.Yongsheng Li#, Zishan Wang#, Yuan Wang#, Zheng Zhao, Jinwen Zhang, Jianping Lu, Juan Xu*, Xia Li*. Identification and characterization of lncRNA mediated transcriptional dysregulation dictates lncRNA roles in glioblastoma. Oncotarget, 2016. (第一作者，SCI影响因子5.008)
45.Chunjie Jiang#, Yongsheng Li#, Zheng Zhao#, Jianping Lu, Hong Chen, Na Ding, Guangjuan Wang, Juan Xu*, Xia Li*. Identifying and functionally characterizing tissue-specific and ubiquitously expressed human lncRNAs. Oncotarget, 2016. (共同第一作者，SCI影响因子5.008)
46.Zhaoyu Liu#, Lei Han#, Yucui Dong#, Yanli Tan, Yongsheng Li, Manli Zhao, Hui Xie, Huanyu Ju, He Wang, Yu Zhao, Qifan Zheng, Qixue Wang, Jun Su, Chuan Fang, Songbin Fu, Tao Jiang, Jiaren Liu, Xia Li*, Chunsheng Kang*, Huan Ren*. EGFRvIII/integrin β3 interaction in hypoxic and vitronectinenriching microenvironment promote GBM progression and metastasis. Oncotarget, 2015. (SCI影响因子5.008)
47.Yongsheng Li#, Tingting Shao#, Chunjie Jiang#, Jing Bai, Zishan Wang, Jinwen Zhang, Lili Zhang, Zheng Zhao, Juan Xu*, Xia Li*. Construction and analysis of dynamic transcription factor regulatory networks in the progression of glioma. Scientific Reports, 2015. (第一作者，SCI影响因子5.228)
48.Yongsheng Li#, Hong Chen#, Tao Pan#, Chunjie Jiang, Zheng Zhao, Zishan Wang, Jinwen Zhang, Juan Xu*, Xia Li*. LncRNA Ontology: inferring lncRNA functions based on chromatin states and expression patterns. Oncotarget, 2015. (第一作者，SCI影响因子5.008)
49.Zheng Zhao#, Jing Bai#, Aiwei Wu#, Yuan Wang, Jinwen Zhang, Zishan Wang, Yongsheng Li*, Juan Xu*, Xia Li*. Co-LncRNA: investigating the lncRNA combinatorial effects in GO annotations and KEGG pathways based on human RNA-Seq data. Database The Journal of Biological Databases and Curation, 2015. (共同通讯作者，SCI影响因子4.57)
50.Tingting Shao, Aiwei Wu, Juan Chen, Hong Chen, Jianping Lu, Jing Bai, Yongsheng Li*, Juan Xu*, Xia Li*. Identification of module biomarkers from the dysregulated ceRNA-ceRNA interaction network in lung adenocarcinoma. Molecular BioSystems, 2015. (共同通讯作者, SCI影响因子3.534)
51.Yongsheng Li#, Juan Chen#, Jinwen Zhang#, Zishan Wang, Tingting Shao, Chunjie Jiang, Juan Xu*, Xia Li*. Construction and analysis of lncRNA-lncRNA synergistic networks to reveal clinically relevant lncRNAs in cancer. Oncotarget, 2015. (第一作者，SCI影响因子5.008)
52.Tingting Shao, Zheng Zhao, Aiwei Wu, Jing Bai, Yongsheng Li, Hong Chen, Chunjie Jiang, Yuan Wang, Shengli Li, Letian Wang, Fengmin Zhang*, Juan Xu*, Xia Li*. Functional dissection of virus-human crosstalk mediated by miRNAs based on the VmiReg database. Molecular BioSystems, 2015. (SCI影响因子3.534)
53.Yongsheng Li#, Yunpeng Zhang#, Shengli Li#, Jianping Lu, Juan Chen, Yuan Wang, Yixue Li*, Juan Xu*, Xia Li*. Genome-wide DNA methylome analysis reveals epigenetically dysregulated non-coding RNAs in human breast cancer. Scientific Reports, 2015. (第一作者，SCI影响因子5.228)
54.Yongsheng Li#, Cynthia Camarillo#, Juan Xu#, Tania BedardArana, Yun Xiao, Zheng Zhao, Hong Chen, Michael A Escamilla, Alfonso Ontiveros, Humberto Nicolini, Alvaro Jerez, Lewis P. Rubin, Xia Li*, Chun Xu*. Genome-Wide Methylome Analyses Reveal Novel Epigenetic Regulation Patterns in Schizophrenia and Bipolar Disorder. BioMed Research International, 2015. (第一作者，SCI影响因子2.706)
55.Zheng Zhao, Yongsheng Li, Hong Chen, Jianping Lu, Peter M Thompson, Juan Chen, Zishan Wang, Juan Xu*, Chun Xu*, Xia Li*. PD-NGSAtlas: A reference database combining next-generation sequencing epigenomic and transcriptomic data for psychiatric disorders. BMC Medical Genomics, 2014. (SCI影响因子3.91)
56.Jing Bai#, Yongsheng Li#, Tingting Shao, Zheng Zhao, Yuan Wang, Aiwei Wu, Hong Chen, Shengli Li, Chunjie Jiang, Juan Xu*, Xia Li*. Integrating analysis reveals microRNA-mediated pathway crosstalk among Crohn's disease, ulcerative colitis and colorectal cancer. Molecular BioSystems, 2014. (共同第一作者，SCI影响因子3.534)
57.Yongsheng Li, Juan Xu, Hong Chen, Jing Bai, Shengli Li, Zheng Zhao, Tingting Shao, Tao Jiang, Huan Ren*, Chunsheng Kang*, Xia Li*. Comprehensive analysis of the functional microRNA–mRNA regulatory network identifies miRNA signatures associated with glioma malignant progression. Nucleic Acids Research, 2013. (第一作者，SCI影响因子11.561)
58.Yongsheng Li#, Juan Xu#, Huanyu Ju#, Yun Xiao, Hong Chen, Junying Lv, Tingting Shao, Jing Bai, Yunpeng Zhang, Li Wang, Xishan Wang*, Huan Ren*, Xia Li*. A network-based, integrative approach to identify genes with aberrant co-methylation in colorectal cancer. Molecular BioSystems, 2013. (第一作者，SCI影响因子3.534)
59.Yongsheng Li#, Juan Xu#, Hong Chen#, Zheng Zhao, Shengli Li, Jing Bai, Aiwei Wu, Chunjie Jiang, Yuan Wang, Bin Su, Xia Li*. Characterizing Genes with Distinct Methylation Patterns in the Context of Protein-Protein Interaction Network: Application to Human Brain Tissues. PLoS ONE, 2013. (第一作者，SCI影响因子3.73)
60.Juan Xu#, Yongsheng Li#, Xiang Li#, Chuanxing Li, Tingting Shao, Jing Bai, Hong Chen, Xia Li*. Dissection of the potential characteristic of miRNA–miRNA functional synergistic regulations. Molecular BioSystems, 2012. (共同第一作者，SCI影响因子3.534)
61.Chuanxing Li#, Yongsheng Li#, Juan Xu, Junying Lv, Ye Ma, Tingting Shao, Binsheng Gong, Renjie Tan, Yun Xiao, Xia Li*. Disease-driven detection of differential inherited SNP modules from SNP network. Gene, 2011. (共同第一作者，SCI影响因子2.341)
62.Juan Xu#, Chuan-Xing Li#, Jun-Ying Lv#, Yong-Sheng Li, Yun Xiao, Ting-Ting Shao, Xiao Huo, Xiang Li, Yan Zou, Qing-Lian Han, Xia Li*, Li-Hua Wang*, Huan Ren*. Prioritizing Candidate Disease miRNAs by Topological Features in the miRNA Target-Dysregulated Network: Case Study of Prostate Cancer. Molecular Cancer Therapeutics, 2011. (SCI影响因子5.985)
63.Juan Xu#, Chuan-Xing Li#, Yong-Sheng Li, Jun-Ying Lv, Ye Ma, Ting-Ting Shao, Liang-De Xu, Ying-Ying Wang, Lei Du, Yun-Peng Zhang, Wei Jiang, Chun-Quan Li, Yun Xiao, Xia Li*. MiRNA-miRNA synergistic network: Construction via co-regulating functional modules and disease miRNA topological features. Nucleic Acids Research, 2010 (SCI影响因子10.162)

?会议论文：
1.Yongsheng Li#*, Tiantongfei Jiang#, Weiwei Zhou#, Junyi Li, Xinhui Li, Qi Wang, Xiaoyan Jin, Jiaqi Yin, Liuxin Chen, Yunpeng Zhang, Juan Xu*, Xia Li*. Pan-cancer characterization of immune-related lncRNAs identifies potential oncogenic biomarkers. 2020年中国肿瘤标志物学术大会，二等奖
2.Yongsheng Li, Daniel J. McGrail, Juan Xu, Junyi Li, Song Yi, Nidhi Sahni: RNA interactome topology perturbation analysis reveals candidate driver mutations in cancer. AACR, 2019.
3.Nidhi Sahni, Daniel McGrail, Yongsheng Li, Gordon Mills, Song (Stephen) Yi: Beyond BRCA: Discovery of novel drivers of homologous recombination deficiencies in cancer. AACR, 2019.
4.Yongsheng Li, Daniel J McGrail, Juan Xu, Junyi Li, Ning‐Ning Liu, Ming Sun, Richard Lin, Rita Pancsa, Ju‐Seog Lee, Hui Wang, Gordon B Mills, Xia Li, Song Yi, Nidhi Sahni: Functional Landscape of Protein-RNA Interactome Perturbations in Liver Cancer. Hepatology, DOI: 10.1002/hep.30257 (The Liver Meeting? 2018)
5.Yongsheng Li, Lili Li, Zishan Wang, Tao Pan, Xiyun Jin, Xia Li, Yunpeng Zhang, Juan Xu: LncMAP: Pan-cancer atlas of long noncoding RNA-mediated transcriptional network perturbations. (第八届全国生物信息学与系统生物学学术大会，2018)
?参与编写的教材/著作：
1. 李霞 主编，《生物信息学》（第2版）（卫生部八年制规划教材），2015 年，人民卫生出版社（主要参与者）
2. 《Systems Biology in Cancer Research and Drug Discovery》，2012年，springer出版社
3.《非编码微小分子RNA 与心脏疾病-基础研究与临床应用》，2018年，人民卫生出版社
4.《Computational Identification of Cross-Talking ceRNAs: A Bioinformatics Perspective》，2018年，Springer出版社
5. 《Profiling DNA Methylation Patterns of Non-coding RNAs (ncRNAs) in Human Disease: A Bioinformatics Perspective》，2018年，Springer出版社
6. 《RNA function prediction》，2018年，Springer出版社
7. 《COMPUTATIONAL EPIGENETICS FOR BREAST CANCER》，2019年，Elsevier出版社
?会议报告
1.2021年中国细胞生物学学术年会，重庆，分会报告，“Characterization of single cell regulatory networks in cancer reveals oncogenic biomarkers”；
2.2021生物信息学与智能信息处理学术会议，武汉，分会报告，“Pan-cancer characterization of immune-related regulons identifies potential oncogenic biomarkers”；
3.2020年第五届CCF生物信息学会议，哈尔滨，分会报告，“Characterizing the function of genetic mutations based on regulatory network perturbations”；
4.2020年第九届全国生物信息学与系统生物学学术大会，上海，分会报告，“Systematically Analyzing the Regulation of Immune Pathways Identifies Potential Oncogenic Biomarkers”；
5.2020年第九届世界华人神经外科学术大会，武汉，分会报告，“Noncoding RNAs in Glioma: Biological functions and potential clinical applications”；
6.2020年肿瘤转移相关的组学数据分析，在线会议，“基于生物大数据解析恶性肿瘤中免疫lncRNA分子标记功能”；
7.2019年中国肿瘤标志物学术大会暨第十三届肿瘤标志物青年科学家论坛，武汉，分会报告，“From edgotype to phenotype: Revealing the functions of genetic variants by network biology”;
8.中国生物工程学会2016年学术年会暨全国生物技术大会，哈尔滨，分会报告；