2006-06--2007-01   哈佛大学Dana Farber癌症研究所   访问学生

2002-09--2007-07   中国科学院计算技术研究所   博士

1996-09--2000-07   武汉大学   学士

 

2014-11~现在, 中国科学院西双版纳热带植物园, 研究员

2011-01~2013-01,德克萨斯大学达拉斯分校, 访问学者

2010-10~2014-10,中国科学院计算技术研究所, 副研究员

2007-07~2010-09,中国科学院计算技术研究所, 助理研究员

 

2020-01-01-今,中国医药质量管理协会临床试验及大数据质量管理分会, 委员

2020-01-01-今,中国细胞生物学学会植物器官发生分会, 委员

2020-01-01-今,Frontiers in Genetics, 客座副编辑

2019-04-30-今,Scientific Reports, Editorial Board, Editorial Board Member

2013-05-01-今,中科院数学、计算机与生命科学交叉研究青年论坛, 组委会成员

2011-06-01-今,中国科学院青年创新促进会, 会员

2010-10-01-今,Asia Pacific Bioinformatics Network , 会员

 

（1） 中国科学院卢嘉锡青年人才奖, , 院级, 2008

（2） 中国科学院院长优秀奖学金, , 院级, 2007

（3） 中国科学院计算技术研究所所长奖学金, , 研究所（学校）, 2006

（4） 中国科学院研究生院优秀研究生奖学金, , 院级, 2003

 

[1] 刘长宁, 李菁, 胡翔, 黄招琴, 马菊莲. 一种诱导增强CIK细胞的滇重楼多糖组合物及其应用. CN: CN110592015A, 2019-12-20.

[2] 刘长宁, 李菁, 胡翔, 马菊莲. 一种治疗肝损伤的滇重楼总皂苷肠溶缓释制剂及其制备方法. CN: CN110538261A, 2019-12-06.

[3] 刘帮强, 刘长宁, 李恒. 一种长柱重楼的培育方法. CN: CN107637411A, 2018-01-30.

 

[1] Wang, Jie, Jiang, Xiaoke, Bai, Hanrui, Liu, Changning. Genome-wide identification, classification and expression analysis of the JmjC domain-containing histone demethylase gene family in Jatropha curcas L.. SCIENTIFIC REPORTS[J]. 2022, 12(1): http://dx.doi.org/10.1038/s41598-022-10584-3.

[2] Chen, Wen, Li, Jing, Huang, Shulan, Li, Xiaodeng, Zhang, Xuan, Hu, Xiang, Xiang, Shuanglin, Liu, Changning. GCEN: An Easy-to-Use Toolkit for Gene Co-Expression Network Analysis and lncRNAs Annotation. CURRENT ISSUES IN MOLECULAR BIOLOGY[J]. 2022, 44(4): 1479-1487, http://dx.doi.org/10.3390/cimb44040100.

[3] Bai, Quanzi, Yang, Wenjing, Qin, Guochen, Zhao, Baolin, He, Liangliang, Zhang, Xuan, Zhao, Weiyue, Zhou, Dian, Liu, Ye, Liu, Yu, He, Hua, Tadege, Million, Xiong, Yan, Liu, Changning, Chen, Jianghua. Multidimensional Gene Regulatory Landscape of Motor Organ Pulvinus in the Model Legume Medicago truncatula. INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES[J]. 2022, 23(8): [4] Zhao, Yiting, Wu, Lixia, Fu, Qijing, Wang, Dong, Li, Jing, Yao, Baolin, Yu, Si, Jiang, Li, Qian, Jie, Zhou, Xuan, Han, Li, Zhao, Shuanglu, Ma, Canrong, Zhang, Yanfang, Luo, Chongyu, Dong, Qian, Li, Saijie, Zhang, Lina, Jiang, Xi, Li, Youchun, Luo, Hao, Li, Kuixiu, Yang, Jing, Luo, Qiong, Li, Lichi, Peng, Sheng, Huang, Huichuan, Zuo, Zhili, Liu, Changning, Wang, Lei, Li, Chengyun, He, Xiahong, Friml, Jiri, Du, Yunlong. INDITTO2 transposon conveys auxin-mediated DRO1 transcription for rice drought avoidance. PLANT CELL AND ENVIRONMENT[J]. 2021, 44(6): 1846-1857, http://dx.doi.org/10.1111/pce.14029.

[5] Jin, GuiHua, Zhou, YanLi, Yang, Hong, Hu, YanTing, Shi, Yong, Li, Ling, Siddique, Abu N, Liu, ChangNing, Zhu, AnDan, Zhang, ChengJun, Li, DeZhu. Genetic innovations: Transposable element recruitment and de novo formation lead to the birth of orphan genes in the rice genome. JOURNAL OF SYSTEMATICS AND EVOLUTION[J]. 2021, 59(2): 341-351, https://www.webofscience.com/wos/woscc/full-record/WOS:000499738800001.

[6] 张頔, 高晓阳, 张轩, 刘长宁. 花发育相关基因分子进化与花发育调控网络拓扑中心性的相关性研究. 安徽农业科学. 2021, 49(8): 1-4, http://lib.cqvip.com/Qikan/Article/Detail?id=7104450789.

[7] Sang, Shiye, Chen, Wen, Zhang, Di, Zhang, Xuan, Yang, Wenjing, Liu, Changning. Data integration and evolutionary analysis of long non-coding RNAs in 25 flowering plants. BMC GENOMICS. 2021, 22(SUPPL 3): http://dx.doi.org/10.1186/s12864-021-08047-6.

[8] Chen, Lin, Li, Huimin, Xie, Longxiang, Zuo, Zhanjie, Tian, Liqing, Liu, Changning, Guo, Xiangqian. Editorial: Big Data and Machine Learning in Cancer Genomics. FRONTIERS IN GENETICS[J]. 2021, 12: http://dx.doi.org/10.3389/fgene.2021.749584.

[9] Xuan Zhang, Jing Li, BangZhen Pan, Wen Chen, Maosheng Chen, Mingyong Tang, ZengFu Xu, Changning Liu. Extended mining of the oil biosynthesis pathway in biofuel plant Jatropha curcas by combined analysis of transcriptome and gene interactome data. BMC BIOINFORMATICS[J]. 2021, 22(SUPPL 6): [10] 桑世叶, 任强, 吴霜寒, 刘长宁. 植物长非编码RNA进化相关研究进展. 安徽农业科学. 2020, 48(22): 19-24, http://lib.cqvip.com/Qikan/Article/Detail?id=7103322916.

[11] 任强, 桑世叶, 刘长宁. 重楼属植物在线分类鉴定系统的设计与实现. 计算机时代. 2020, 72-75, http://lib.cqvip.com/Qikan/Article/Detail?id=7102713313.

[12] Wang, Jun, Zhang, Xuan, Chen, Wen, Hu, Xiang, Li, Jing, Liu, Changning. Regulatory roles of long noncoding RNAs implicated in cancer hallmarks. INTERNATIONAL JOURNAL OF CANCERnull. 2020, 146(4): 906-916, https://www.webofscience.com/wos/woscc/full-record/WOS:000578788100003.

[13] Li, Jing, Gao, Xiaoyang, Zhang, Xuan, Liu, Changning. Dynamic Expansion and Functional Evolutionary Profiles of Plant Conservative Gene Family SBP-Box in Twenty Two Flowering Plants and the Origin of miR156. BIOMOLECULES[J]. 2020, 10(5): http://dx.doi.org/10.3390/biom10050757.

[14] Li, Jing, Zhang, Xuan, Liu, Changning. The computational approaches of lncRNA identification based on coding potential: Status quo and challenges. COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL[J]. 2020, 18: 3666-3677, http://dx.doi.org/10.1016/j.csbj.2020.11.030.

[15] Gao, Xiaoyang, Zhang, Xuan, Chen, Wen, Li, Jing, Yang, Wenjing, Zhang, Xingwang, Li, Shengying, Liu, Changning. Transcriptome analysis of Paris polyphylla var. yunnanensis illuminates the biosynthesis and accumulation of steroidal saponins in rhizomes and leaves. PHYTOCHEMISTRY[J]. 2020, 178: http://dx.doi.org/10.1016/j.phytochem.2020.112460.

[16] Li, Jing, Liu, Changning. Coding or Noncoding, the Converging Concepts of RNAs. FRONTIERS IN GENETICSnull. 2019, 10(X): http://ir.xtbg.org.cn/handle/353005/11316.

[17] Chen, Wen, Zhang, Guoqiang, Li, Jing, Zhang, Xuan, Huang, Shulan, Xiang, Shuanglin, Hu, Xiang, Liu, Changning. CRISPRlnc: a manually curated database of validated sgRNAs for lncRNAs. NUCLEIC ACIDS RESEARCH[J]. 2019, 47(D1): D63-D68, http://ir.xtbg.org.cn/handle/353005/11221.

[18] Liu Zhangning. Regulatory roles of long non-coding RNAs implicated in cancer hallmarks. International Journal of Cancer. 2019, [19] Zhang, Xuan, Li, Tianjun, Wang, Jun, Li, Jing, Chen, Long, Liu, Changning. Identification of Cancer-Related Long Non-Coding RNAs Using XGBoost With High Accuracy. FRONTIERS IN GENETICS[J]. 2019, 10: https://doaj.org/article/e0b11b39233c46cea30da4bcc751c4e8.

[20] 李岸林, 刘长宁. 基于Snakemake构建非模式生物转录组分析框架. 绿色科技. 2019, 207-210, http://lib.cqvip.com/Qikan/Article/Detail?id=7002679460.

[21] Zhang, Xuan, Pan, BangZhen, Chen, Maosheng, Chen, Wen, Li, Jing, Xu, ZengFu, Liu, Changning. JCDB: a comprehensive knowledge base for Jatropha curcas, an emerging model for woody energy plants. BMC GENOMICS[J]. 2019, 20(Suppl 9): http://dx.doi.org/10.1186/s12864-019-6356-z.

[22] Li, Jing, Gao, Xiaoyang, Sang, Shiye, Liu, Changning. Genome-wide identification, phylogeny, and expression analysis of the SBP-box gene family in Euphorbiaceae. BMC GENOMICS[J]. 2019, 20(Suppl 9): http://dx.doi.org/10.1186/s12864-019-6319-4.

[23] Zhang, Wei, Du, Lei, Qu, Zepeng, Zhang, Xingwang, Li, Fengwei, Li, Zhong, Qi, Feifei, Wang, Xiao, Jiang, Yuanyuan, Men, Ping, Sun, Jingran, Cao, Shaona, Geng, Ce, Qi, Fengxia, Wan, Xiaobo, Liu, Changning, Li, Shengying. Compartmentalized biosynthesis of mycophenolic acid. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA[J]. 2019, 116(27): 13305-13310, http://ir.xtbg.org.cn/handle/353005/11335.

[24] Liu Zhangning. CRlncRC: a novel machine learning method for cancer-related long noncoding RNA identification based on integrated features. BMC Medical Genomics. 2018, [25] Hu, Xiang, Chen, Wen, Li, Jing, Huang, Shulan, Xu, Xuling, Zhang, Xuan, Xiang, Shuanglin, Liu, Changning. ZFLNC: a comprehensive and well-annotated database for zebrafish lncRNA. DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION[J]. 2018, 2018(X): http://ir.xtbg.org.cn/handle/353005/11160.

[26] Chen, Wen, Zhang, Xuan, Li, Jing, Huang, Shulan, Xiang, Shuanglin, Hu, Xiang, Liu, Changning. Comprehensive analysis of coding-lncRNA gene co-expression network uncovers conserved functional lncRNAs in zebrafish. BMC GENOMICS[J]. 2018, 19(S2): http://www.irgrid.ac.cn/handle/1471x/1791609.

[27] Liu Zhangning. Comparative chloroplast genomes of Paris Sect. Marmorata: insights into repeat regions and evolution implications. BMC Genomics. 2018, [28] Zhang, Xuan, Wang, Jun, Li, Jing, Chen, Wen, Liu, Changning. CRlncRC: a machine learning-based method for cancer-related long noncoding RNA identification using integrated features. BMC MEDICAL GENOMICS[J]. 2018, 11(S6): http://ir.xtbg.org.cn/handle/353005/11242.

[29] Wang, Jun, Zhang, Xuan, Chen, Wen, Li, Jing, Liu, Changning. CRlncRNA: a manually curated database of cancer-related long non-coding RNAs with experimental proof of functions on clinicopathological and molecular features. BMC MEDICAL GENOMICS[J]. 2018, 11(S6): https://doaj.org/article/89e78a9d6684487d83fbf91f1934ac0b.

[30] Wang, Peipei, Li, Jing, Gao, Xiaoyang, Zhang, Di, Li, Anlin, Liu, Changning. Genome-Wide Screening and Characterization of the Dof Gene Family in Physic Nut (Jatropha curcas L.). International Journal of Molecular Sciences[J]. 2018, 19(6): https://doaj.org/article/dd684dcfb5634df499eeedd529094e1b.

[31] Li, Yueying, He, Liangliang, Li, Jing, Chen, Jianghua, Liu, Changning. Genome-Wide Identification, Characterization, and Expression Profiling of the Legume BZR Transcription Factor Gene Family. FRONTIERS IN PLANT SCIENCE[J]. 2018, 9: https://doaj.org/article/363d1d7f155b40049e5a68b10015e60c.

[32] 王培培, 刘长宁. 植物基因家族全基因组分析平台构建及在Dof中的应用. 绿色科技. 2018, 1-5, http://lib.cqvip.com/Qikan/Article/Detail?id=675731896.

[33] Gao, Xiaoyang, Zhang, Xuan, Meng, Honghu, Li, Jing, Zhang, Di, Liu, Changning. Comparative chloroplast genomes of Paris Sect. Marmorata: insights into repeat regions and evolutionary implications. BMC GENOMICS[J]. 2018, 19(S10): http://ir.xtbg.org.cn/handle/353005/11243.

[34] 李月颖, 李菁, 刘长宁. 蒺藜苜蓿SBP-box转录因子基因家族全基因组分析. 湖南师范大学自然科学学报. 2017, 40(6): 24-33, http://lib.cqvip.com/Qikan/Article/Detail?id=673967311.

[35] 孙靖然, 刘长宁, 李荣贵, 张伟, 李盛英. 短密青霉NRRL 864异戊烯基转移酶PbPT的克隆表达及功能分析. 青岛大学学报：工程技术版. 2016, 31(2): 107-115, http://lib.cqvip.com/Qikan/Article/Detail?id=669493521.

[36] Changning Liu, Zhenyu Xuan. Prioritization of Cancer-Related Genomic Variants by SNP Association Network. Cancer Informatics[J]. 2015, 57-70, https://doaj.org/article/8a8ec56e2c9a42479e1befa8d38dd2d7.

[37] Li Xu, Liang Fengji, Liu Changning, Zhang Liangcai, Li Yinghui, Li Yu, Chen Shanguang, Xiong Jianghui. Comparison of the Prognostic Utility of the Diverse Molecular Data among lncRNA, DNA Methylation, microRNA, and mRNA across Five Human Cancers. PLOS ONE[J]. 2015, 10(11): http://ir.xtbg.org.cn/handle/353005/9651.

[38] Zhang, Wei, Cao, Shaona, Qiu, Li, Qi, Fengxia, Li, Zhong, Yang, Ying, Huang, Shaohua, Bai, Fali, Liu, Changning, Wan, Xiaobo, Li, Shengying. Functional Characterization of MpaG ', the O-Methyltransferase Involved in the Biosynthesis of Mycophenolic Acid. CHEMBIOCHEM[J]. 2015, 16(4): 565-569, http://ir.xtbg.org.cn/handle/353005/8682.

[39] Li, Jing, Xuan, Zhenyu, Liu, Changning. Long Non-Coding RNAs and Complex Human Diseases. INTERNATIONAL JOURNAL OF MOLECULAR SCIENCESnull. 2013, 14(9): 18790-18808, https://doaj.org/article/92bfd770ed80422e9cae8d0f9fd5797a.

[40] Sun Liang, Luo HaiTao, Liao Qi, Bu DeChao, Zhao GuoGuang, Liu ChangNing, Liu YuanNing, Zhao Yi. Systematic study of human long intergenic non-coding RNAs and their impact on cancer. SCIENCE CHINA-LIFE SCIENCES[J]. 2013, 56(4): 324-334, https://www.webofscience.com/wos/woscc/full-record/WOS:000317610200005.

[41] Jing Li, Zhenyu Xuan. Long Non-Coding RNAs and Complex Human Diseases. mdpi. 2013, http://oa.las.ac.cn/oainone/service/browseall/read1?ptype=JA&workid=JA202003190033202ZK.

[42] 陈润生. CloudLCA: finding the lowest common ancestor in metagenome analysis using cloud computing. PROTEIN & CELL[J]. 2012, 3(50): 148-152, http://www.irgrid.ac.cn/handle/1471x/756738.

[43] 陈润生. NONCODE v3.0: integrative annotation of long noncoding RNAs. NUCLEIC ACIDS RESEARCH[J]. 2012, 40(51): D210-D215, http://www.irgrid.ac.cn/handle/1471x/756876.

[44] Liao, Qi, Yuan, Xiongying, Xiao, Hui, Liu, Changning, Lv, Zhiyue, Zhao, Yi, Wu, Zhongdao. Identifying Schistosoma japonicum Excretory/Secretory Proteins and Their Interactions with Host Immune System. PLOS ONE[J]. 2011, 6(8): https://doaj.org/article/6caabbfb1f6e45298a03c7757a61a198.

[45] 陈润生. ncFANs: a web server for functional annotation of long non-coding RNAs. NUCLEIC ACIDS RESEARCH[J]. 2011, 39(54): W118-W124, http://www.irgrid.ac.cn/handle/1471x/757406.

[46] Yuan, Xiongying, Zhao, Yi, Liu, Changning, Bu, Dongbo. LEX-SVM: EXPLORING THE POTENTIAL OF EXON EXPRESSION PROFILING FOR DISEASE CLASSIFICATION. JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY[J]. 2011, 9(2): 299-316, https://www.webofscience.com/wos/woscc/full-record/WOS:000297077400007.

[47] Liao, Qi, Liu, Changning, Yuan, Xiongying, Kang, Shuli, Miao, Ruoyu, Xiao, Hui, Zhao, Guoguang, Luo, Haitao, Bu, Dechao, Zhao, Haitao, Skogerbo, Geir, Wu, Zhongdao, Zhao, Yi. Large-scale prediction of long non-coding RNA functions in a coding-non-coding gene co-expression network. NUCLEIC ACIDS RESEARCH[J]. 2011, 39(9): 3864-3878, https://www.webofscience.com/wos/woscc/full-record/WOS:000290589500037.

[48] Miao, RuoYu, Zhao, HaiTao, Yang, HuaYu, Mao, YiLei, Lu, Xin, Zhao, Yi, Liu, ChangNing, Zhong, ShouXian, Sang, XinTing, Huang, JieFu. Postoperative adjuvant antiviral therapy for hepatitis B/C virus-related hepatocellular carcinoma: A meta-analysis. WORLD JOURNAL OF GASTROENTEROLOGY[J]. 2010, 16(23): 2931-2942, http://lib.cqvip.com/Qikan/Article/Detail?id=1001267145.

[49] Liu, Changning, Li, Jing, Zhao, Yi. Exploring hierarchical and overlapping modular structure in the yeast protein interaction network. BMC GENOMICS[J]. 2010, 11(Suppl 4): S17-S17, http://dx.doi.org/10.1186/1471-2164-11-S4-S17.

[50] Yang, Zhen, Ren, Fei, Liu, Changning, He, Shunmin, Sun, Gang, Gao, Qian, Yao, Lei, Zhang, Yangde, Miao, Ruoyu, Cao, Ying, Zhao, Yi, Zhong, Yang, Zhao, Haitao. dbDEMC: a database of differentially expressed miRNAs in human cancers. BMC GENOMICS[J]. 2010, 11(8): S5-S5, http://dx.doi.org/10.1186/1471-2164-11-S4-S5.

[51] Yuan, Xiongying, Liu, Changning, Yang, Pengcheng, He, Shunmin, Liao, Qi, Kang, Shuli, Zhao, Yi. Clustered microRNAs' coordination in regulating protein-protein interaction network. BMC SYSTEMS BIOLOGY[J]. 2009, 3(1): 65-65, http://www.corc.org.cn/handle/1471x/2399167.

[52] 陈润生. NONCODE v2.0: decoding the non-coding. NUCLEIC ACIDS RESEARCH[J]. 2008, 36(77): D170-D172, http://www.irgrid.ac.cn/handle/1471x/757741.

[53] Sun, Shiwei, Yu, Chungong, Qiao, Yantao, Lin, Yu, Dong, Gongjin, Liu, Changning, Zhang, Lingfen, Zhang, Zhuo, Cai, Jinjin, Zhang, Hong, Bu, Dongbo. Deriving the probabilities of water loss and ammonia loss for amino acids from tandem mass spectra. JOURNAL OF PROTEOME RESEARCH[J]. 2008, 7(1): 202-208, http://www.irgrid.ac.cn/handle/1471x/757736.

[54] 陈润生. MicroRNA-encoding long non-coding RNAs. BMC GENOMICS[J]. 2008, 9(75): https://doaj.org/article/275af1bd98194f92b73599d2a2a93c03.

[55] 陈润生. MicroRNA regulation of messenger-like noncoding RNAs: a network of mutual microRNA control. TRENDS IN GENETICS[J]. 2008, 24(72): 323-327, http://dx.doi.org/10.1016/j.tig.2008.04.004.

[56] 刘长宁. 基于系统生物学的非编码基因研究. 2007, [57] 陈润生. Dynamic changes in subgraph preference profiles of crucial transcription factors. PLOS COMPUTATIONAL BIOLOGY[J]. 2006, 2(98): 383-391, https://doaj.org/article/4a4203f05bf1482bb7c7292b26dee8fe.

[58] 陈润生. NONCODE: an integrated knowledge database of non-coding RNAs. NUCLEIC ACIDS RESEARCH[J]. 2005, 33(112): D112-D115, http://www.corc.org.cn/handle/1471x/2377672.

发表著作

（1） 生物信息学计算技术和软件导论, 科学出版社, 2017-01, 第 5 作者

 

（ 1 ） 长非编码 RNA 数据库及应用软件平台的构建, 主持, 国家级, 2014-01--2016-12

（ 2 ） 基于多组学数据整合的肿瘤相关长非编码 RNA 优化筛选和调控机, 主持, 国家级, 2015-01--2018-12

（ 3 ） 人类-线虫超保守长非编码 RNA 的系统发现及其在线虫发育调控, 主持, 国家级, 2015-01--2017-12

（ 4 ） 滇重楼功能基因组应用研究, 主持, 省级, 2016-01--2020-12

（ 5 ） 小桐子花发育相关非编码RNA (miRNA/lncRNA) 的系统发现及功能和机制研究, 主持, 国家级, 2020-01--2023-12

（ 6 ） 陕西秦岭地区特色中药材植物功能基因组研究, 主持, 国家级, 2021-01--2024-12

（ 7 ） 牧草基因组编辑数据库搭建, 主持, 部委级, 2020-11--2025-10