尚德思（教授、 碩士生導師、博士生導師，生物物理學博士（生物信息方向）、藥學博士後（藥物基因組方向）），2003网站太阳集团附屬第一醫院人工智能與大數據教研室副主任兼2003网站太阳集团教授、碩士生導師。2010 年獲得基礎醫學碩士學位（七年制本碩連讀），2013年獲得生物物理學博士學位。發表 SCI 論文 40 餘篇。主持國家自然科學基金青年項目與面上項目，黑龍江省博士後啟動項目，湖南省自然科學基金面上項目等。作為學術骨幹參與國家自然科學基金3項，重大研究計劃 1 項。擔任中國計算機學會生物信息學專業委員會委員、中國抗癌協會腫瘤标志專業委員會腫瘤測序及大數據分析專家委員會委員、湖南省生物醫學工程學會理事等。擔任 《Nucleic Acids Research》、《Briefings in Bioinformatics》等多個雜志的審稿人或編委。主要研究方向為利用網絡模型對複雜疾病的機制研究與免疫治療耐藥性研究。Email: sds_46@163.com。

研究領域:

  自2007年起參與李霞教授所領導課題組從事生物信息學領域的學習和研究工作，主要研究方向為複雜疾病的代謝網絡重構與網絡分析，代謝類疾病複雜機制分析，小分子藥物相關的非編碼RNA的識别與功能分析以及相關網絡平台的構建等。主持多項國家級及省級課題。擔任Molecular Biosystem、Briefing in Bioinformatics、Biomed Res Int等多個雜志審稿人，《Frontiers in oncology》雜志專欄主編等。

主持課題

1. 國家自然科學基金 青年項目 (編号. 31501074)；小分子藥物相關非編碼RNA的識别與功能研究；2016-2018.

2. 黑龍江省衛生廳課題 (編号.2018465)；2018-2020.

3. 黑龍江省博士後啟動項目（編号LBH-Z18168）；利用通路拓撲識别疾病相關代謝子；2019-2021

獎勵

   1.省自然科學獎,黑龍江省政府,二等獎（參與）,2018

發表主要論文

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. (通訊作者)

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. (通訊作者)

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. (通訊作者)

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. (通訊作者)

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. (通訊作者)

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. (通訊作者)

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)