尚德思，男，1984年4月生，博士，副教授，硕士生导师。自2007年起参与李霞教授所领导课题组从事生物信息学领域的学习和研究工作，主要研究方向为复杂疾病的代谢网络重构与网络分析，代谢类疾病复杂机制分析，小分子药物相关的非编码RNA的识别与功能分析以及相关网络平台的构建等。担任Molecular Biosystem、Briefing in Bioinformatics、Biomed Res Int等多个杂志审稿人，《Frontiers in oncology》杂志专栏主编等。Email: sds_46@163.com。

研究领域:

  自2007年起参与李霞教授所领导课题组从事生物信息学领域的学习和研究工作，主要研究方向为复杂疾病的代谢网络重构与网络分析，代谢类疾病复杂机制分析，小分子药物相关的非编码RNA的识别与功能分析以及相关网络平台的构建等。主持多项国家级及省级课题。担任Molecular Biosystem、Briefing in Bioinformatics、Biomed Res Int等多个杂志审稿人，《Frontiers in oncology》杂志专栏主编等。

主持课题

1. 国家自然科学基金 青年项目 (编号. 31501074)；小分子药物相关非编码RNA的识别与功能研究；2016-2018.

2. 黑龙江省卫生厅课题 (编号.2018465)；2018-2020.

3. 黑龙江省博士后启动项目（编号LBH-Z18168）；利用通路拓扑识别疾病相关代谢子；2019-2021

奖励

   1.省自然科学奖,黑龙江省政府,二等奖（参与）,2018

发表主要论文

1. Bing Liu, Xiaorui Zhou, Dongyuan Wu, Xuesong Zhang, Xiuyun Shen, Kai Mi, Zhangyi Qu, Yanan Jiang, Desi Shang. Comprehensive characterization of a drug resistance-related ceRNA network across 15 anti-cancer drug categories. Molecular Therapy - Nucleic Acids 2021 Feb 15;24:11-24. (通讯作者)

2. Mi K, Chen F, Qian Z, Chen J, Lv D, Zhang C, Xu Y, Wang H, Zhang Y, Jiang Y, Shang D. Characterizing heterogeneity of non-small cell lung tumour microenvironment to identify signature prognostic genes. Journal of cellular and molecular medicine. 2020 Dec;24(24):14608-14618. (通讯作者)

3. Mi K, Jiang Y, Chen J, Lv D, Qian Z, Sun H, Shang D. Construction and Analysis of Human Diseases and Metabolites Network. Frontiers in bioengineering and biotechnology. 2020; 8: 398. (通讯作者)

4. Zhao R, Tian L, Zhao B, Sun Y, Cao J, Chen K, Li F, Li M, Shang D, Liu M. FADS1 promotes the progression of laryngeal squamous cell carcinoma through activating AKT/mTOR signaling. Cell death & disease. 2020; 11: 272. (通讯作者)

5. Gu X, Jiang YN, Wang WJ, Zhang J, Shang DS, Sun CB, Tian JT, Tian JW, Yu B, Zhang Y. Comprehensive circRNA expression profile and construction of circRNA-related ceRNA network in cardiac fibrosis. Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie. 2020; 125: 109944.

6. Yang H, Jiang Y, Zhang Y, Xu Y, Zhang C, Han J, Su F, Liu X, Mi K, Liu B, Shang D. System level characterization of small molecule drugs and their affected long noncoding RNAs. Aging. 2019; 11: 12428-51. (通讯作者)

7. Dong Q, Li F, Xu Y, Xiao J, Xu Y, Shang D, Zhang C, Yang H, Tian Z, Mi K, Li X, Zhang Y. RNAactDrug: a comprehensive database of RNAs associated with drug sensitivity from multi-omics data. Briefings in bioinformatics. 2019.

8. Xu Y, Wu T, Li F, Dong Q, Wang J, Shang D, Xu Y, Zhang C, Dou Y, Hu C, Yang H, Zheng X, Zhang Y, Wang L, Li X. Identification and comprehensive characterization of lncRNAs with copy number variations and their driving transcriptional perturbed subpathways reveal functional significance for cancer. Briefings in bioinformatics. 2019.

9. Xu Y, Lin S, Zhao H, Wang J, Zhang C, Dong Q, Hu C, Desi S, Wang L, Xu Y. Quantifying Risk Pathway Crosstalk Mediated by miRNA to Screen Precision drugs for Breast Cancer Patients. Genes. 2019; 10.

10. 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. Molecular oncology. 2019; 13: 2211-26.

11. Xu Y, Dong Q, Li F, Xu Y, Hu C, Wang J, Shang D, Zheng X, Yang H, Zhang C, Shao M, Meng M, Xiong Z, Li X, Zhang Y. Identifying subpathway signatures for individualized anticancer drug response by integrating multi-omics data. Journal of translational medicine. 2019; 17: 255.

12. Zhao R, Li FQ, Tian LL, Shang DS, Guo Y, Zhang JR, Liu M. Comprehensive analysis of the whole coding and non-coding RNA transcriptome expression profiles and construction of the circRNA-lncRNA co-regulated ceRNA network in laryngeal squamous cell carcinoma. Functional & integrative genomics. 2019; 19: 109-21.

13. Yang H, Zhang Y, Wang J, Wu T, Liu S, Xu Y, Shang D. Global view of a drug-sensitivity gene network. Oncotarget. 2018; 9: 3254-66. (通讯作者)

14. Zhang CL, Xu YJ, Yang HX, Xu YQ, Shang DS, Wu T, Zhang YP, Li X. sPAGM: inferring subpathway activity by integrating gene and miRNA expression-robust functional signature identification for melanoma prognoses. Scientific reports. 2017; 7: 15322.

15. Yang H, Shang D, Xu Y, Zhang C, Feng L, Sun Z, Shi X, Zhang Y, Han J, Su F, Li C, Li X. The LncRNA Connectivity Map: Using LncRNA Signatures to Connect Small Molecules, LncRNAs, and Diseases. Scientific reports. 2017; 7: 6655.(并列一作)

16. Xu Y, Yang H, Wu T, Dong Q, Sun Z, Shang D, Li F, Xu Y, Su F, Liu S, Zhang Y, Li X. BioM2MetDisease: a manually curated database for associations between microRNAs, metabolites, small molecules and metabolic diseases. Database : the journal of biological databases and curation. 2017; 2017.

17. Han J, Liu S, Sun Z, Zhang Y, Zhang F, Zhang C, Shang D, Yang H, Su F, Xu Y, Li C, Ren H, Li X. LncRNAs2Pathways: Identifying the pathways influenced by a set of lncRNAs of interest based on a global network propagation method. Scientific reports. 2017; 7: 46566.

18. Xu Y, Li F, Wu T, Xu Y, Yang H, Dong Q, Zheng M, Shang D, Zhang C, Zhang Y, Li X. LncSubpathway: a novel approach for identifying dysfunctional subpathways associated with risk lncRNAs by integrating lncRNA and mRNA expression profiles and pathway topologies. Oncotarget. 2017; 8: 15453-69.

19. Li S, Xu Y, Sun Z, Feng L, Shang D, Zhang C, Shi X, Han J, Su F, Yang H, Zhao J, Song C, Zhang Y, Li C, Li X. Identification of a lncRNA involved functional module for esophageal cancer subtypes. Molecular bioSystems. 2016; 12: 3312-23.

20. Su F, Shang D, Xu Y, Feng L, Yang H, Liu B, Su S, Chen L, Li X. Cofunctional Subpathways Were Regulated by Transcription Factor with Common Motif, Common Family, or Common Tissue. BioMed research international. 2015; 2015: 780357.

21. Yao Q, Xu Y, Yang H, Shang D, Zhang C, Zhang Y, Sun Z, Shi X, Feng L, Han J, Su F, Li C, Li X. Global Prioritization of Disease Candidate Metabolites Based on a Multi-omics Composite Network. Scientific reports. 2015; 5: 17201.

22. Feng L, Xu Y, Zhang Y, Sun Z, Han J, Zhang C, Yang H, Shang D, Su F, Shi X, Li S, Li C, Li X. Subpathway-GMir: identifying miRNA-mediated metabolic subpathways by integrating condition-specific genes, microRNAs, and pathway topologies. Oncotarget. 2015; 6: 39151-64.

23. Han J, Shi X, Zhang Y, Xu Y, Jiang Y, Zhang C, Feng L, Yang H, Shang D, Sun Z, Su F, Li C, Li X. ESEA: Discovering the Dysregulated Pathways based on Edge Set Enrichment Analysis. Scientific reports. 2015; 5: 13044.

24. 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. Journal of biomedical informatics. 2015; 54: 132-40. (并列一作)

25. Zhang C, Li C, Xu Y, Feng L, Shang D, Yang X, Han J, Sun Z, Li Y, Li X. Integrative analysis of lung development-cancer expression associations reveals the roles of signatures with inverse expression patterns. Molecular bioSystems. 2015; 11: 1271-84.

26. Han J, Li C, Yang H, Xu Y, Zhang C, Ma J, Shi X, Liu W, Shang D, Yao Q, Zhang Y, Su F, Feng L, Li X. A novel dysregulated pathway-identification analysis based on global influence of within-pathway effects and crosstalk between pathways. Journal of the Royal Society, Interface. 2015; 12: 20140937.

27. Shang D, Yang H, Xu Y, Yao Q, Zhou W, Shi X, Han J, Su F, Su B, Zhang C, Li C, Li X. A global view of network of lncRNAs and their binding proteins. Molecular bioSystems. 2015; 11: 656-63.（第一作者）

28. Liu Y, Zhang R, Qiu F, Li K, Zhou Y, Shang D, Xu Y. Construction of a lncRNA-PCG bipartite network and identification of cancer-related lncRNAs: a case study in prostate cancer. Molecular bioSystems. 2015; 11: 384-93.

29. Shang D, Li C, Yao Q, Yang H, Xu Y, Han J, Li J, Su F, Zhang Y, Zhang C, Li D, Li X. Prioritizing candidate disease metabolites based on global functional relationships between metabolites in the context of metabolic pathways. PloS one. 2014; 9: e104934. （第一作者）

30. Li F, Xu Y, Shang D, Yang H, Liu W, Han J, Sun Z, Yao Q, Zhang C, Ma J, Su F, Feng L, Shi X, Zhang Y, Li J, Gu Q, Li X, Li C. MPINet: metabolite pathway identification via coupling of global metabolite network structure and metabolomic profile. BioMed research international. 2014; 2014: 325697.

31. Zhang C, Li C, Li J, Han J, Shang D, Zhang Y, Zhang W, Yao Q, Han L, Xu Y, Yan W, Bao Z, You G, Jiang T, Kang C, Li X. Identification of miRNA-mediated core gene module for glioma patient prediction by integrating high-throughput miRNA, mRNA expression and pathway structure. PloS one. 2014; 9: e96908.

32. Li J, Li C, Han J, Zhang C, Shang D, Yao Q, Zhang Y, Xu Y, Liu W, Zhou M, Yang H, Su F, Li X. The detection of risk pathways, regulated by miRNAs, via the integration of sample-matched miRNA-mRNA profiles and pathway structure. Journal of biomedical informatics. 2014; 49: 187-97.

33. Li K, Li Z, Zhao N, Xu Y, Liu Y, Zhou Y, Shang D, Qiu F, Zhang R, Chang Z, Xu Y. Functional analysis of microRNA and transcription factor synergistic regulatory network based on identifying regulatory motifs in non-small cell lung cancer. BMC systems biology. 2013; 7: 122.

34. Liu W, Li C, Xu Y, Yang H, Yao Q, Han J, Shang D, Zhang C, Su F, Li X, Xiao Y, Zhang F, Dai M, Li X. Topologically inferring risk-active pathways toward precise cancer classification by directed random walk. Bioinformatics. 2013; 29: 2169-77.

35. Li C, Han J, Yao Q, Zou C, Xu Y, Zhang C, Shang D, Zhou L, Zou C, Sun Z, Li J, Zhang Y, Yang H, Gao X, Li X. Subpathway-GM: identification of metabolic subpathways via joint power of interesting genes and metabolites and their topologies within pathways. Nucleic acids research. 2013; 41: e101.

36. Li C, Shang D, Wang Y, Li J, Han J, Wang S, Yao Q, Wang Y, Zhang Y, Zhang C, Xu Y, Jiang W, Li X. Characterizing the network of drugs and their affected metabolic subpathways. PloS one. 2012; 7: e47326. (并列一作)

37. Li C, Han J, Shang D, Li J, Wang Y, Wang Y, Zhang Y, Yao Q, Zhang C, Li K, Li X. Identifying disease related sub-pathways for analysis of genome-wide association studies. Gene. 2012; 503: 101-9. (并列一作)

38. Li X, Li C, Shang D, Li J, Han J, Miao Y, Wang Y, Wang Q, Li W, Wu C, Zhang Y, Li X, Yao Q. The implications of relationships between human diseases and metabolic subpathways. PloS one. 2011; 6: e21131. (并列一作)