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王秋毓
2022-09-05 11:44  

王秋毓、博士、南华大学附属第一医院医学大数据与人工智能教研室副教授主要研究方向为复杂疾病生物分子网络模型构建及分析迄今累积发表SCI论文32篇,以第一/通讯作者身份发表SCI论文7篇主持国家自然科学基金青年基金1项黑龙江省自然科学基金面上项目1项教育部心肌缺血重点实验室开放课题1项。获湖南省大学生创新创业比赛优秀指导教师称号。


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发表主要论文

1. Gao Y#, Feng C#, Zhang Y#, Song C#, Chen J, Li Y, Wei L, Qian F, Ai B, Liu Y, Zhu J, Su X*, Li C*, Wang Q*. TRmir: A Comprehensive Resource for Human Transcriptional Regulatory Information of MiRNAs. Front Genet. 2022 Feb 4;13:808950. doi: 10.3389/fgene.2022.808950. PMID: 35186035; PMCID: PMC8854293.

2. Zhang Y#, Song C#, Zhang Y#, Wang Y#, Feng C, Chen J, Wei L, Pan Q, Shang D, Zhu Y, Zhu J, Fang S, Zhao J, Yang Y, Zhao X, Xu X, Wang Q*, Guo J*, Li C*. TcoFBase: a comprehensive database for decoding the regulatory transcription co-factors in human and mouse. Nucleic Acids Res. 2022 Jan 7;50(D1):D391-D401. doi: 10.1093/nar/gkab950. PMID: 34718747; PMCID: PMC8728270.

3. Yang Y#, Qian F#, Li X#, Li Y#, Zhou L, Wang Q, Zhou X, Zhang J, Song C, Yu Z, Cui T, Feng C, Zhu J, Shang D, Liu J, Sun M, Zhang Y, Tang H*, Li C*. GREAP: a comprehensive enrichment analysis software for human genomic regions. Brief Bioinform. 2022 Aug 12:bbac329. doi: 10.1093/bib/bbac329. Epub ahead of print. PMID: 35959979.

4. Xu M#, Bai X#, Ai B#, Zhang G, Song C, Zhao J, Wang Y, Wei L, Qian F, Li Y, Zhou X, Zhou L, Yang Y, Chen J, Liu J, Shang D, Wang X, Zhao Y, Huang X, Zheng Y, Zhang J*, Wang Q*, Li C*. TF-Marker: a comprehensive manually curated database for transcription factors and related markers in specific cell and tissue types in human. Nucleic Acids Res. 2022 Jan 7;50(D1):D402-D412. doi: 10.1093/nar/gkab1114. PMID: 34986601; PMCID: PMC8728118.

5. Wei L#, Chen J#, Song C#, Zhang Y#, Zhang Y, Xu M, Feng C, Gao Y, Qian F, Wang Q, Shang D, Zhou X, Zhu J, Wang X, Jia Y, Liu J, Zhu Y, Li C*. Cancer CRC: A Comprehensive Cancer Core Transcriptional Regulatory Circuit Resource and Analysis Platform. Front Oncol. 2021 Oct 12;11:761700. doi: 10.3389/fonc.2021.761700. PMID: 34712617; PMCID: PMC8546348.

6. Li XC#, Tang ZD#, Peng L#, Li YY#, Qian FC, Zhao JM, Ding LW, Du XJ, Li M, Zhang J, Bai XF, Zhu J, Feng CC, Wang QY*, Pan J*, Li CQ*. Integrative Epigenomic Analysis of Transcriptional Regulation of Human CircRNAs. Front Genet. 2021 Jan 25;11:590672. doi: 10.3389/fgene.2020.590672. PMID: 33569079; PMCID: PMC7868561.

7. Liu Y#, Cui Y#, Bai X#, Feng C, Li M, Han X, Ai B, Zhang J, Li X, Han J, Zhu J, Jiang Y, Pan Q, Wang F, Xu M, Li C, Wang Q*. MiRNA-Mediated Subpathway Identification and Network Module Analysis to Reveal Prognostic Markers in Human Pancreatic Cancer. Front Genet. 2020 Dec 9;11:606940. doi: 10.3389/fgene.2020.606940. PMID: 33362865; PMCID: PMC7756031.

8. Li Y#, Li X#, Yang Y#, Li M#, Qian F, Tang Z, Zhao J, Zhang J, Bai X, Jiang Y, Zhou J, Zhang Y, Zhou L, Xie J, Li E, Wang Q*, Li C*. TRlnc: a comprehensive database for human transcriptional regulatory information of lncRNAs. Brief Bioinform. 2020 Feb 11. pii: bbaa011. doi: 10.1093/bib/bbaa011. [Epub ahead of print] PubMed PMID: 32047897.

9. Bai X#, Shi S#, Ai B#, Jiang Y#, Liu Y#, Han X, Xu M, Pan Q, Wang F, Wang Q, Zhang J, Li X, Feng C, Li Y, Wang Y, Song Y, Feng K, Li C*. ENdb: a manually curated database of experimentally supported enhancers for human and mouse. Nucleic Acids Res. 2020 Jan 8;48(D1):D51-D57. doi: 10.1093/nar/gkz973. PMID: 31665430.

10. Feng C#, Song C#, Liu Y#, Qian F, Gao Y, Ning Z, Wang Q, Jiang Y, Li Y, Li M, Chen J, Zhang J*, Li C*. KnockTF: a comprehensive human gene expression profile database with knockdown/knockout of transcription factors. Nucleic Acids Res. 2020 Jan 8;48(D1):D93-D100. doi: 10.1093/nar/gkz881. PMID: 31598675; PMCID:PMC6943067.

11. Chen J#, Zhang J#, Gao Y#, Li Y#, Feng C, Song C, Ning Z, Zhou X, Zhao J, Feng M, Zhang Y, Wei L, Pan Q, Jiang Y, Qian F, Han J, Yang Y, Wang Q, Li C*. LncSEA: a platform for long non-coding RNA related sets and enrichment analysis. Nucleic Acids Res. 2021 Jan 8;49(D1):D969-D980. doi: 10.1093/nar/gkaa806. PMID: 33045741; PMCID: PMC7778898.

12. Pan Q#, Liu YJ#, Bai XF#, Han XL#, Jiang Y, Ai B, Shi SS, Wang F, Xu MC, Wang YZ, Zhao J, Chen JX, Zhang J, Li XC, Zhu J, Zhang GR, Wang QY, Li CQ*. VARAdb: a comprehensive variation annotation database for human. Nucleic Acids Res. 2021 Jan 8;49(D1):D1431-D1444. doi: 10.1093/nar/gkaa922. PMID: 33095866; PMCID: PMC7779011.

13. Wang F#, Bai X#, Wang Y#, Jiang Y#, Ai B#, Zhang Y, Liu Y, Xu M, Wang Q, Han X, Pan Q, Li Y, Li X, Zhang J, Zhao J, Zhang G, Feng C, Zhu J, Li C*. ATACdb: a comprehensive human chromatin accessibility database. Nucleic Acids Res. 2021 Jan 8;49(D1):D55-D64. doi: 10.1093/nar/gkaa943. PMID: 33125076; PMCID: PMC7779059.

14. Wang QY#, Peng L#, Chen Y, Liao LD, Chen JX, Li M, Li YY, Qian FC, Zhang YX, Wang F, Li CQ*, Lin DC*, Xu LY*, Li EM*. Characterization of super-enhancer-associated functional lncRNAs acting as ceRNAs in ESCC. Mol Oncol. 2020 Sep;14(9):2203-2230. doi:10.1002/1878-0261.12726.Epub 2020 Jun 20. PMID:32460441; PMCID: PMC7463357.

15. Li M#, Zhao J#, Li X#, Chen Y, Feng C, Qian F, Liu Y, Zhang J, He J, Ai B, Ning Z, Liu W, Bai X, Han X, Wu Z, Xu X, Tang Z, Pan Q, Xu L, Li C*, Wang Q*, Li E*. HiFreSP: A novel high-frequency sub-pathway mining approach to identify robust prognostic gene signatures. Brief Bioinform. 2020 Jul 15;21(4):1411-1424. doi: 10.1093/bib/bbz078. PMID: 31350847.

16. Qian FC#, Li XC#, Guo JC#, Zhao JM, Li YY, Tang ZD, Zhou LW, Zhang J, Bai XF, Jiang Y, Pan Q, Wang QY, Li EM, Li CQ*, Xu LY*, Lin DC*. SEanalysis: a web tool for super-enhancer associated regulatory analysis. Nucleic Acids Res. 2019 Jul 2;47(W1):W248-W255. doi: 10.1093/nar/gkz302. PubMed PMID: 31028388; PubMed Central PMCID: PMC6602466.

17. Ning Z#, Feng C#, Song C#, Liu W, Shang D, Li M, Wang Q, Zhao J, Liu Y, Chen J, Yu X*, Zhang J*, Li C*. Topologically inferring active miRNA-mediated subpathways toward precise cancer classification by directed random walk. Mol Oncol. 2019 Oct;13(10):2211-2226. doi: 10.1002/1878-0261.12563. Epub 2019 Aug 27. PubMed PMID: 31408573; PubMed Central PMCID: PMC676378.

18. Zhao J#, Li X#, Guo J#, Li M, Zhang J, Ding J, Li S, Tang Z, Qian F, Li Y, Wang Q, Li C*, Li E*, Xu L*. ReCirc: prediction of circRNA expression and function through probe reannotation of non-circRNA microarrays. Mol Omics. 2019 Apr 1;15(2):150-163. doi: 10.1039/c8mo00252e. Epub 2019 Mar 27. PubMed PMID:30916068.

19. Jiang Y#, Qian F#, Bai X#, Liu Y, Wang Q, Ai B, Han X, Shi S, Zhang J, Li X, Tang Z, Pan Q, Wang Y, Wang F, Li C*. SEdb: a comprehensive human super-enhancer database. Nucleic Acids Res. 2019 Jan 8;47(D1):D235-D243. doi: 10.1093/nar/gky1025. PubMed PMID: 30371817; PubMed Central PMCID: PMC6323980.

20. Tang Z#, Li X#, Zhao J#, Qian F, Feng C, Li Y, Zhang J, Jiang Y, Yang Y, Wang Q, Li C*. TRCirc: a resource for transcriptional regulation information of circRNAs. Brief Bioinform. 2019 Nov 27;20(6):2327-2333. doi: 10.1093/bib/bby083. PubMed PMID: 30184150.

21. Feng C#, Song C#, Ning Z#, Ai B, Wang Q, Xu Y, Li M, Bai X, Zhao J, Liu Y, Li X, Zhang J*, Li C*. ce-Subpathway: Identification of ceRNA-mediated subpathways via joint power of ceRNAs and pathway topologies. J Cell Mol Med. 2019 Feb;23(2):967-984. doi: 10.1111/jcmm.13997. Epub 2018 Nov 12. PubMed PMID: 30421585; PubMed Central PMCID: PMC6349186.

22. Song C#, Zhang J#, Qi H#, Feng C, Chen Y, Cao Y, Ba L, Ai B, Wang Q, Huang W, Li C*, Sun H*. The global view of mRNA-related ceRNA cross-talks across cardiovascular diseases. Sci Rep. 2017 Aug 31;7(1):10185. doi: 10.1038/s41598-017-10547-z. PubMed PMID: 28860540; PubMed Central PMCID: PMC5579186.

23. Li C#*, Wang Q#*, Ma J#, Shi S, Chen X, Yang H, Han J*. Integrative Pathway Analysis of Genes and Metabolites Reveals Metabolism Abnormal Subpathway Regions and Modules in Esophageal Squamous Cell Carcinoma. Molecules. 2017 Sep 22;22(10). pii: E1599. doi: 10.3390/molecules22101599. PubMed PMID: 28937628 (IF=2.8)

24. Li CQ#, Huang GW#, Wu ZY#, Xu YJ, Li XC, Xue YJ, Zhu Y, Zhao JM, Li M, Zhang J, Wu JY, Lei F, Wang QY, Li S, Zheng CP, Ai B, Tang ZD, Feng CC, Liao LD, Wang SH, Shen JH, Liu YJ, Bai XF, He JZ, Cao HH, Wu BL, Wang MR, Lin DC, Koeffler HP, Wang LD, Li X*, Li EM*, Xu LY*. Integrative analyses of transcriptome sequencing identify novel functional lncRNAs in esophageal squamous cell carcinoma. Oncogenesis. 2017 Feb 13;6(2):e297. doi: 10.1038/oncsis.2017.1. PubMed PMID: 28194033; PubMed Central PMCID: PMC5337622.

25. Zhao J#, Li X#, Yao Q#, Li M, Zhang J, Ai B, Liu W, Wang Q, Feng C, Liu Y, Bai X, Song C, Li S, Li E, Xu L*, Li C*. RWCFusion: identifying phenotype-specific cancer driver gene fusions based on fusion pair random walk scoring method. Oncotarget. 2016 Sep 20;7(38):61054-61068. doi: 10.18632/oncotarget.11064. PubMed PMID: 27506935; PubMed Central PMCID: PMC5308635.

26. Feng C#, Zhang J#, Li X#, Ai B, Han J, Wang Q, Wei T, Xu Y, Li M, Li S, Song C, Li C*. Subpathway-CorSP: Identification of metabolic subpathways via integrating expression correlations and topological features between metabolites and genes of interest within pathways. Sci Rep. 2016 Sep 14;6:33262.

27. Guo JC, Li CQ, Wang QY, Zhao JM, Ding JY, Li EM*, Xu LY*. Protein-coding genes combined with long non-coding RNAs predict prognosis in esophageal squamous cell carcinoma patients as a novel clinical multi-dimensional signature. Mol Biosyst. 2016 Oct 18;12(11):3467-3477. PubMed PMID: 27714034.

28. Zhang J#, Wang Y#, Shang D#, Yu F, Liu W, Zhang Y, Feng C, Wang Q, Xu Y, Liu Y, Bai X, Li X, Li C*. Characterizing and optimizing human anticancer drug targets based on topological properties in the context of biological pathways. J Biomed Inform. 2015 Apr;54:132-140.

29. Liu W#, Wang Q#, Zhao J, Zhang C, Liu Y, Zhang J, Bai X, Li X, Feng H, Liao M, Wang W*, Li C*. Integration of pathway structure information into a reweighted partial Cox regression approach for survival analysis on high-dimensional gene expression data. Mol Biosyst. 2015 Jul;11(7):1876-86.

30. Lv W#, Wang Q#, Chen H#, Jiang Y#, Zheng J, Shi M, Xu Y, Han J, Li C*, Zhang R*. Prioritization of rheumatoid arthritis risk subpathways based on global immune subpathway interaction network and random walk strategy. Mol Biosyst. 2015 Oct 13;11

31. Liu W#, Bai X#, Liu Y#, Wang W, Han J, Wang Q, Xu Y, Zhang C, Zhang S, Li X, Ren Z, Zhang J*, Li C*. Topologically inferring pathway activity toward precise cancer classification via integrating genomic and metabolomic data: prostate cancer as a case. Sci Rep. 2015 Aug 19;5:13192.

32. Li J#, Zhang Y#, Wang Y#, Zhang C, Wang Q, Shi X, Li C, Zhang R*, Li X*. Functional combination strategy for prioritization of human miRNA target. Gene. 2014;533(1):132-141.


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