姓名：杨建华
性别：男
个人主页：个人主页
工作电话：**
电子邮件：yangjh7@mail.sysu.edu.cn
职称：教授
导师类型：博士生导师
学历：博士研究生
学科方向
0710生物学-10生物化学与分子生物学
0710生物学-Z1生物信息学
研究方向
1、开发基于新一代测序技术（NGS）的新算法和实验方法解码非编码RNA基因的功能和调控网络
2、整合高通量癌症基因组数据结合实验研究非编码RNA在疾病发生发展中的作用
3、开发表观转录组学的分析和实验方法研究RNA修饰的功能和机制
个人经历
教育经历：
1. 2003/9–2008/7， 中山大学，生物化学与分子生物学， 博士，导师：屈良鹄
2. 1998/9–2002/7， 西南农业大学（现西南大学）， 生物科学与农学， 学士
工作经历：
1. 2016/1-至今，中山大学，生命科学学院，教授
2. 2011/1-2015/12，中山大学，生命科学学院，副教授
3. 2008/7-2010/12，中山大学，生命科学学院，讲师（师资博士后）
讲授课程
本科生
《计算机程序设计语言》
《科技论文写作》
研究生
《RNA分子生物学》
本科生竞赛
1、带领的中大SYSU-Software队在国际遗传工程机器设计大赛（iGEM）上
获得4次软件组冠军（Best Software Project）和连续6年获得金牌?
2、带领的中大iGEM队获得首届大学生“小平科技创新团队”奖
3、指导本科生获得挑战杯“全国二等奖”和“广东省特等奖”
学术成就
长期致力于开发新算法、平台和实验方法研究非编码RNA基因和RNA修饰及其互作蛋白的结构、功能和作用机制。
以通讯作者或第一作者身份在Nature Cell Biology、European Urology、Cell Research、Nucleic Acids Res.、Cell Reports等杂志发表20多篇研究论文，以合作者身份在Nature Methods、Cell Stem Cell等杂志发表10多篇研究论文。通讯作者或第一作者的研究论文有15篇IF>10.0，其中8篇研究论文被选为ESI高引用论文，1篇被Nature Cell Biology杂志亮点评述，1篇被选为Cell Research杂志的封面和亮点评述,1篇被European Urology杂志亮点评述,1篇论文入选“2014年中国百篇最具影响国际学术论文”，?单篇最高SCI他引超过450次。开发的工具被Nature等杂志引用超过1800次，受邀在Springer出版社出版了4篇关于非编码RNA研究方法的论著章节。期刊Non-coding RNA journal的编委，主持该杂志的首期Special Issue。是Nucleic Acids Res., Mol. Biol. Evol.，Bioinformatics, ?Brief. Bioinform等杂志审稿人。是海外French National Alliance (AVIESAN) and?French National Cancer Institute (INCa)、Netherlands Organisation for Scientific Research (NWO)等基金评审专家。
率先利用CLIP-seq、ChIP-seq和Epitranscriptome数据和概率罚分模型等开发新的算法和平台，包括starBase、snoSeeker、 StarScan、 circScan、RMBase、tRF2cancer、ChIPBase、deepBase等。starBase平台已成为国际同行最广泛使用的非编码RNA功能网络预测工具之一(starBase平台在google scholar总引用超过1000次)。
承担课题
主持项目
2018-2021，国家自然科学面上项目
2015-2017，国家自然科学基金重大研究计划培育项目
2014-2017，国家自然科学面上项目
2010-2012，国家自然科学青年项目
课题骨干
2017-2021， 国家重点研发项目
论文专著
研究论文
2018年
Huang H+, Weng H+, Sun W+, Qin X+, Shi H+, Wu H, Zhao BS, Mesquita A, Liu C, Yuan CL, Hu YC, Hüttelmaier S, Skibbe JR, Su R, Deng X, Dong L, Sun M, Li C, Nachtergaele S, Wang Y, Hu C, Ferchen K, Greis KD, Jiang X, Wei M, Qu L, Guan JL, He C*, Yang J*, Chen J*. Recognition of RNA N(6)-methyladenosine by IGF2BP proteins enhances mRNA stability and translation. Nat Cell Biology. 2018 Mar;20(3):285-295.?(* Correspondence Author, +Co-first author)?ESI Highly Cited Paper,?News & Views?in?Nat Cell Biology.
Qu L+, Wang ZL+, Chen Q+, Li YM+, He HW, Hsieh JJ, Xue S, Wu ZJ, Liu B, Tang H, Xu XF, Xu F, Wang J, Bao Y, Wang AB, Wang D, Yi XM, Zhou ZK, Shi CJ, Zhong K, Sheng ZC, Zhou YL, Jiang J, Chu XY, He J, Ge JP, Zhang ZY, Zhou WQ*, Chen C*, Yang JH*, Sun YH*, Wang LH*. Prognostic Value of a Long Non-coding RNA Signature in Localized Clear Cell Renal Cell Carcinoma. European Urology 2018 Aug 21. 10.1016/j.eururo.2018.07.032. (* Correspondence Author, +Co-first author)?Highlight? in European Urology?
Bao X, Guo X, Yin M, Tariq M, Lai Y, Kanwal S, Zhou J, Li N, Lv Y, Pulido-Quetglas C, Wang X, Ji L, Khan MJ, Zhu X, Luo Z, Shao C, Lim DH, Liu X, Li N, Wang W, He M, Liu YL, Ward C, Wang T, Zhang G, Wang D, Yang J, Chen Y, Zhang C, Jauch R, Yang YG, Wang Y, Qin B, Anko ML, Hutchins AP, Sun H, Wang H, Fu XD, Zhang B, Esteban MA. Capturing the interactome of newly transcribed RNA. Nat Methods. 2018 Mar;15(3):213-220.
Weng H, Huang H, Wu H, Qin X, Zhao BS, Dong L, Shi H, Skibbe J, Shen C, Hu C, ?Sheng Y, Wang Y, Wunderlich M, Zhang B, Dore LC, Su R, Deng X, Ferchen K, Li C, Sun M, Lu Z, Jiang X, Marcucci G, Mulloy JC, Yang J, Qian Z, Wei M, He C, Chen J. METTL14 Inhibits Hematopoietic Stem/Progenitor Differentiation and Promotes Leukemogenesis via mRNA m(6)A Modification. Cell Stem Cell.2018 Feb 1;22(2):191-205.ESI Highly Cited Paper,??Highlight?in?Cell Stem Cell.
Wang ZL+, Li B+, Luo YX, Lin Q, Liu SR, Zhang XQ, Zhou H, Yang JH*, Qu LH*. Comprehensive Genomic Characterization of RNA-Binding Proteins across Human Cancers. Cell Reports. 2018 Jan 2;22(1):286-298. (* Correspondence Author, +Co-first author)
Zheng LL+, Zhou KR+, Liu S, Zhang DY, Wang ZL, Chen ZR, Yang JH*, Qu LH*. dreamBase: DNA modification, RNA regulation and protein binding of expressed pseudogenes in human health and disease. Nucleic Acids Res.?2018 Jan 4;46(D1):D85-D91.?(* Correspondence Author, +Co-first author)
Xuan JJ, Sun WJ, Lin PH, Zhou KR, Liu S, Zheng LL, Qu LH*, Yang JH*. RMBase v2.0: deciphering the map of RNA modifications from epitranscriptome sequencing data. Nucleic Acids Res.?2018 Jan 4;46(D1):D327-D334.? (* Correspondence Author)
2017年
Zhang XQ*+, Wang ZL+, Poon MW+, Yang JH*. Spatial-temporal transcriptional dynamics of long non-coding RNAs in human brain. Hum Mol Genet. 2017 Aug 15;26(16):3202-3211.(* Correspondence Author, +Co-first author)
Zheng LL, Deng KW, Deng AC, Wu J, Yang JH, Lun ZR, Qu LH. Exo-miRExplorer: A Comprehensive Resource for Exploring and Comparatively Analyzing Exogenous MicroRNAs. Front Microbiol. 2017 Feb 1;8:126.
Zhou KR, Liu S, Sun WJ, Zheng LL, Zhou H, Yang JH*, Qu LH*. ChIPBase v2.0: decoding transcriptional regulatory networks of non-coding RNAs and protein-coding genes from ChIP-seq data. Nucleic Acids Res. 2017 Jan 4;45(D1):D43-D50. (* Correspondence Author)ESI Highly Cited Paper
2016年
Huang ZP, Ding Y, Chen J, Wu G, Kataoka M, Hu Y, Yang JH, Liu J, Drakos SG, Selzman CH, Kyselovic J, Qu LH, Dos Remedios CG, Pu WT, Wang DZ. Long non-coding ?RNAs link extracellular matrix gene expression to ischemic cardiomyopathy. Cardiovasc Res. 2016 Aug 24. pii: cvw201.
Guo YH, Wang LQ, Li B, Xu H, Yang JH, Zheng LS, Yu P, Zhou AD, Zhang Y, Xie SJ, Liang ZR, Zhang CM, Zhou H, Qu LH. Wnt/β-catenin pathway transactivates microRNA-150 that promotes EMT of colorectal cancer cells by suppressing CREB signaling. Oncotarget. 2016 Jul 5;7(27):42513-4252
Zheng LL, Xu WL, Liu S, Sun WJ, Li JH, Wu J, Yang JH*, Qu LH*. tRF2Cancer: A web server to detect tRNA-derived small RNA fragments (tRFs) and their expression in multiple cancers. Nucleic Acids Res. 2016 Jul 8;44(W1):W185-93. (* Correspondence Author)
Wang ZL+, Li B,+ Piccolo SR, Zhang XQ, Li JH, Zhou H, Yang JH*, Qu LH*. Integrative analysis reveals clinical phenotypes and oncogenic potentials of long non-coding RNAs across 15 cancer types. Oncotarget. 2016 Jun 7;7(23):35044-55. (* Correspondence Author,+Co-first author)
Zheng LL, Li JH, Wu J, Sun WJ, Liu S, Wang ZL, Zhou H, Yang JH*, Qu LH*. deepBase v2.0: identification, expression, evolution and function of small RNAs, LncRNAs and circular RNAs from deep-sequencing data. Nucleic Acids Res. 2016 Jan 4;44(D1):D196-202. (* Correspondence Author)?ESI Highly Cited Paper
Sun WJ, Li JH, Liu S, Wu J, Zhou H, Qu LH*, Yang JH*. RMBase: a resource for decoding the landscape of RNA modifications from high-throughput sequencing data. Nucleic Acids Res. 2016 Jan 4;44(D1):D259-65. (* Correspondence Author)ESI Highly Cited Paper
2015年
Liu S, Li JH, Wu J, Zhou KR, Zhou H, Yang JH*, Qu LH*. StarScan: a web server for scanning small RNA targets from degradome sequencing data. Nucleic Acids Res. 2015 Jul 1;43(W1):W480-6. (* Correspondence Author)
Li JH, Liu S, Zheng LL, Wu J, Sun WJ, Wang ZL, Zhou H, Qu LH*, Yang JH*. Discovery of Protein-lncRNA Interactions by Integrating Large-Scale CLIP-Seq and ?RNA-Seq Datasets. Front Bioeng Biotechnol. 2015 Jan 14;2:88. (* Correspondence Author, ?research paper invited by Carlo Maria Croce)
2014年
Zhang YJ, Yang JH, Shi QS, Zheng LL, Liu J, Zhou H, Zhang H, Qu LH. Rapid birth-and-death evolution of imprinted snoRNAs in the Prader-Willi syndrome locus: implications for neural development in Euarchontoglires. PLoS One. 2014 Jun 19;9(6):e100329.
Gou LT+, Dai P+, Yang JH+, Xue Y, Hu YP, Zhou Y, Kang JY, Wang X, Li H, Hua MM, Zhao S, Hu SD, Wu LG, Shi HJ, Li Y, Fu XD, Qu LH, Wang ED, Liu MF. Pachytene piRNAs instruct massive mRNA elimination during late spermiogenesis. Cell Res. 2014 Jun;24(6):680-700. (+Co-first author)Cover?Paper, Research Highlight?in Cell Res.
Wen JZ, Liao JY, Zheng LL, Xu H, Yang JH, Guan DG, Zhang SM, Zhou H, Qu LH. A contig-based strategy for the genome-wide discovery of microRNAs without complete genome resources. PLoS One. 2014 Feb 7;9(2):e88179.
Li JH, Liu S, Zhou H, Qu LH*, Yang JH*. starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein-RNA interaction networks from large-scale CLIP-Seq data. Nucleic Acids Res. 2014 Jan;42:D92-7. (* Correspondence Author)ESI Highly Cited Paper
Wen JZ, Liao JY, Zheng LL, Xu H, Yang JH, Guan DG, Zhang SM, Zhou H, Qu LH. A Contig-Based Strategy for the Genome-Wide Discovery of MicroRNAs without Complete Genome Resources. PLoS One. 2014 Feb 7;9(2):e88179.
2013年
Yang JH, Li JH, Jiang S, Zhou H, Qu LH. ChIPBase: a database for decoding the transcriptional regulation of long non-coding RNA and microRNA genes from ChIP-Seq data. Nucleic Acids Res. 2013 Jan;41:D177-87. ESI Highly Cited Paper
Xiao ZD, Diao LT, Yang JH, Xu H, Huang MB, Deng YJ, Zhou H, Qu LH. Deciphering the transcriptional regulation of microRNA genes in humans with ACTLocater. Nucleic Acids Res. 2013 Jan 7;41(1):e5.
Zheng LL, Wen YZ, Yang JH, Liao JY, Shao P, Xu H, Zhou H, Wen JZ, Lun ZR, Ayala FJ, Qu LH. Comparative transcriptome analysis of small noncoding RNAs in different stages of Trypanosoma brucei. RNA. 2013 Jul;19(7):863-75.
Shao P, Liao JY, Guan DG, Yang JH, Zheng LL, Jing Q, Zhou H, Qu LH. Drastic expression change of transposon-derived piRNA-like RNAs and microRNAs in early stages of chicken embryos implies a role in gastrulation. RNA Biol. 2012 Feb;9(2):212-
2011年
Yang JH, Li JH, Shao P, Zhou H, Chen YQ, Qu LH. starBase: a database for exploring microRNA-mRNA interaction maps from Argonaute CLIP-Seq and Degradome-Seq data. Nucleic Acids Res. 2011 Jan;39:D202-9.?ESI Highly Cited Paper
2010年
Yang JH, Shao P, Zhou H, Chen YQ, Qu LH. deepBase: a database for deeply annotating and mining deep sequencing data. Nucleic Acids Res. 2010 Jan;38:D123-30.
Zhang Y, Guan DG, Yang JH, Shao P, Zhou H, Qu LH. ncRNAimprint: a comprehensive database of mammalian imprinted noncoding RNAs. RNA. 2010 Oct;16(10):1889-901.
2010以前
Zhang H+, Yang JH+, Zheng YS+, Zhang P, Chen X, Wu J, Xu L, Luo XQ, Ke ZY, Zhou H, Qu LH, Chen YQ. Genome-wide analysis of small RNA and novel MicroRNA discovery in human acute lymphoblastic leukemia based on extensive sequencing approach. PLoS One. 2009 4(9):e6849. (+ co-first author)
Shao P+, Yang JH+, Zhou H, Guan DG, Qu LH. Genome-wide analysis of chicken snoRNAs provides unique implications for the evolution of vertebrate snoRNAs. BMC Genomics. 2009 Feb 22;10:86. (+ co-first author)
Yang JH, Zhang XC, Huang ZP, Zhou H, Huang MB, Zhang S, Chen YQ, Qu LH. snoSeeker: an advanced computational package for screening of guide and orphan snoRNA genes in the human genome. Nucleic Acids Res. 2006;34(18):5112-23.