北京大学基础医学院医学生物信息学系

教授, 博士生导师

研究领域：

医学生物信息学，围绕重大复杂疾病靶点识别、机制挖掘、药物研发等科学问题深入探索

实验室网站：https://www.cuilab.cn

通讯地址：北京市海淀区学院路38号 邮编：100191

Email：cuiqinghua@bjmu.edu.cn

个人简介

2005年于中科院自动化所获得博士学位，2005-2007年于加拿大国家研究委员会生物技术研究所从事博士后学术研究，2007年加入北京大学医学部。以通讯作者（含共同作者）身份在Cell Discovery、J Clin Inves、Nucleic Acids Research、Science Advances、Bioinformatics、Brief Bioinform等杂志发表SCI研究论文80余篇。2010年入选教育部新世纪优秀人才，2014年获得国家自然科学基金委优秀青年科学基金，2020年获得国家杰出青年科学基金。已授权中国专利4项、美国专利、欧盟专利各1项。崔庆华教授创建的人类microRNA疾病数据库HMDD和lncRNA疾病数据库LncRNADisease，均位居国际医学与健康领域数据库影响力前3%（分列全球第22和25名，中国第1和第3名）。他所创建的非编码RNA疾病网络分析算法MISIM、microRNA疾病与功能富集分析算法TAM等被国际著名学者评价为非编码RNA与疾病生物信息处理领域提出最早、应用最广的算法。他利用所建立的工具，揭示了一批新靶点如血管损伤新靶点lncVSM，糖脂代谢新靶点lncSHGL。他筛选到一批新药物，如发现柚皮素能有效防治腹主动脉瘤（已授权中国、美国和欧盟专利），还揭示了系列新机制，例如揭示了糖皮质激素诱发糖尿病的机制。

代表性论文

1.Shen Y, Gao Y, Shi J, Huang Z, Dai R, Fu Y, Zhou Y, Kong W, Cui Q. MicroRNA-Disease Network Analysis Repurposes Methotrexate for the Treatment of Abdominal Aortic Aneurysm in Mice. Genomics Proteomics Bioinformatics. 2022 Aug 24:S1672-0229(22)00095-X. doi: 10.1016/j.gpb.2022.08.002.

2.Cui C, Cui Q. Importance score of SARS-CoV-2 genome predicts the death risk of COVID-19. Cell Death Discov. 2022 Jul 2;8(1):303.

3.Liu X, Chen Z, Li S, Jin L, Cui X, Cui C, Deng Y, Gao Q, Fan L, Niu Y, Wang W, Cui C, Zhong J, Cui Q, Geng B, Cai J. Pre-miRNA Hsa-Let-7a-2: a Novel Intracellular Partner of Angiotensin II Type 2 Receptor Negatively Regulating its Signals. Int J Biol Sci. 2022 May 1;18(8):3237-3250.

4.Xu W, Cui C, Cui C, Chen Z, Zhang H, Cui Q, Xu G, Fan J, Han Y, Tang L, Targher G, Byrne CD, Zheng MH, Yang L, Cai J, Geng B. Hepatocellular cystathionine γ lyase/hydrogen sulfide attenuates nonalcoholic fatty liver disease by activating farnesoid X receptor. Hepatology. 2022 May 19. doi: 10.1002/hep.32577.

5.Jia Y, Zhang L, Liu Z, Mao C, Ma Z, Li W, Yu F, Wang Y, Huang Y, Zhang W, Zheng J, Wang X, Xu Q, Zhang J, Feng W, Yun C, Liu C, Sun J, Fu Y, Cui Q, Kong W. Targeting macrophage TFEB-14-3-3 epsilon Interface by naringenin inhibits abdominal aortic aneurysm. Cell Discov. 2022 Mar 1;8(1):21.

6.Sun R, Zhou Y, Cui Q. Comparative analysis of aneurysm subtypes associated genes based on protein-protein interaction network. BMC Bioinformatics. 2021 Dec 11;22(1):587.

7.Hu C, Shi J, Chi Y, Yang J, Cui Q. Y/X-Chromosome-Bearing Sperm Shows Elevated Ratio in the Left but Not the Right Testes in Healthy Mice. Life (Basel). 2021 Nov 11;11(11):1219.

8.Zhao CR, Yang FF, Cui Q, Wang D, Zhou Y, Li YS, Zhang YP, Tang RZ, Yao WJ, Wang X, Pang W, Zhao JN, Jiang ZT, Zhu JJ, Chien S, Zhou J. Vitexin inhibits APEX1 to counteract the flow-induced endothelial inflammation. Proc Natl Acad Sci U S A. 2021 Nov 30;118(48):e2115158118.

9.Zhang S, Liu Z, Xie N, Huang C, Li Z, Yu F, Fu Y, Cui Q, Kong W. Pan-HDAC (Histone Deacetylase) Inhibitors Increase Susceptibility of Thoracic Aortic Aneurysm and Dissection in Mice. Arterioscler Thromb Vasc Biol. 2021 Nov;41(11):2848-2850.

10.Mao C, Ma Z, Jia Y, Li W, Xie N, Zhao G, Ma B, Yu F, Sun J, Zhou Y, Cui Q, Fu Y, Kong W. Nidogen-2 Maintains the Contractile Phenotype of Vascular Smooth Muscle Cells and Prevents Neointima Formation via Bridging Jagged1-Notch3 Signaling. Circulation. 2021 Jul 28. doi: 10.1161/CIRCULATIONAHA.120.053361.

11.Cui C, Zhou Y, Cui Q. Defining the functional divergence of orthologous genes between human and mouse in the context of miRNA regulation. Brief Bioinform. 2021 Jul 5:bbab253. doi: 10.1093/bib/bbab253.

12.Fan R, Cui Q. Toward comprehensive functional analysis of gene lists weighted by gene essentiality scores. Bioinformatics. 2021 Jun 25:btab475.

13.Sun R, Cui C, Zhou Y, Cui Q. Comprehensive Analysis of RNA Expression Correlations between Biofluids and Human Tissues. Genes (Basel). 2021 Jun 18;12(6):935.

14.Yang Y, Ma Q, Li Z, Wang H, Zhang C, Liu Y, Li B, Wang Y, Cui Q, Xue F, Ai D, Zhu Y, He J. Harmine alleviates atherogenesis by inhibiting disturbed flow-mediated endothelial activation via protein tyrosine phosphatase PTPN14 and YAP. Br J Pharmacol. 2021 Apr;178(7):1524-1540.

15.Zhu M, Gao J, Lin XJ, Gong YY, Qi YC, Ma YL, Song YX, Tan W, Li FY, Ye M, Gong J, Cui QH, Huang ZH, Zhang YY, Wang XJ, Lan F, Wang SQ, Yuan G, Feng Y, Xu M. Novel roles of an intragenic G-quadruplex in controlling microRNA expression and cardiac function. Nucleic Acids Res. 2021 Mar 18;49(5):2522-2536.

16.Huang C, Zhou Y, Yang J, Cui Q, Li Y. A New Metric Quantifying Chemical and Biological Property of Small Molecule Metabolites and Drugs. Front Mol Biosci. 2020 Dec 15;7:594800.

17.Xu X, Zhou Y, Feng X, Li X, Asad M, Li D, Liao B, Li J, Cui Q, Wang E. Germline genomic patterns are associated with cancer risk, oncogenic pathways, and clinical outcomes. Sci Adv. 2020 Nov 27;6(48):eaba4905.

18.Ji X, Cui C, Cui Q. smORFunction: a tool for predicting functions of small open reading frames and microproteins. BMC Bioinformatics. 2020 Oct 14;21(1):455.

19.Zhou Y, Peng H, Cui Q, Zhou Y. tRFTar: Prediction of tRF-target gene interactions via systemic re-analysis of Argonaute CLIP-seq datasets. Methods. 2020 Oct 9:S1046-2023(20)30220-6.

20.Fan H, Zhang Y, Zhang J, Yao Q, Song Y, Shen Q, Lin J, Gao Y, Wang X, Zhang L, Zhang Y, Liu P, Zhao J, Cui Q, Li JZ, Chang Y. Cold-Inducible Klf9 Regulates Thermogenesis of Brown and Beige Fat. Diabetes. 2020 Dec;69(12):2603-2618.

21.Cui C, Fan J, Zeng Q, Cai J, Chen Y, Chen Z, Wang W, Li SY, Cui Q, Yang J, Tang C, Xu G, Cai J, Geng B. CD4+ T-Cell Endogenous Cystathionine γ Lyase-Hydrogen Sulfide Attenuates Hypertension by Sulfhydrating Liver Kinase B1 to Promote T Regulatory Cell Differentiation and Proliferation. Circulation. 2020 Nov 3;142(18):1752-1769.

22.Fan R, Zhang N, Yang L, Ke J, Zhao D, Cui Q. AI-based prediction for the risk of coronary heart disease among patients with type 2 diabetes mellitus. Sci Rep. 2020 Sep 2;10(1):14457.

23.Ji X, Zhang H, Cui Q. A Panel of Synapse-Related Genes as a Biomarker for Gliomas. Front Neurosci. 2020 Aug 11;14:822. doi: 10.3389/fnins.2020.00822.

24.Shi J, Hu C, Zhou Y, Cui C, Yang J, Cui Q. MicroRNA Profiling in Paired Left and Right Eyes, Lungs, and Testes of Normal Mice. Mol Ther Nucleic Acids. 2020 Jul 10;21:687-695. doi: 10.1016/j.omtn.2020.07.006.

25.Cui C, Huang C, Zhou W, Ji X, Zhang F, Wang L, Zhou Y, Cui Q. AGTR2, one possible novel key gene for the entry of SARS-CoV-2 into human cells. IEEE/ACM Trans Comput Biol Bioinform. 2020 Jul 14;PP. doi: 10.1109/TCBB.2020.3009099. Online ahead of print.

26.Shi J, Cui Q. sTAM: An Online Tool for the Discovery of miRNA-Set Level Disease Biomarkers. Mol Ther Nucleic Acids. 2020 Jul 10;21:670-675. doi: 10.1016/j.omtn.2020.07.004.

27.Yang X, Du X, Ma K, Li G, Liu Z, Rong W, Miao H, Zhu F, Cui Q, Wu S, Li Y, Du J. Circulating miRNAs Related to Long-term Adverse Cardiovascular Events in STEMI Patients: A Nested Case-Control Study. Can J Cardiol. 2020 Mar 20:S0828-282X(20)30273-7. doi: 10.1016/j.cjca.2020.03.018. Online ahead of print.

28.Wang H, Zhou Y, Yin Z, Chen L, Jin L, Cui Q, Xue L. Transcriptome analysis of common and diverged circulating miRNAs between arterial and venous during aging. Aging (Albany NY). 2020 Jun 30;12(13):12987-13004. doi: 10.18632/aging.103385.

29.Meng Y, Xiang R, Yan H, Zhou Y, Hu Y, Yang J, Zhou Y, Cui Q. Transcriptomic landscape profiling of metformin-treated healthy mice: Implication for potential hypertension risk when prophylactically used. J Cell Mol Med. 2020 Jun 11;24(14):8138-50. doi: 10.1111/jcmm.15472.

30.Ji X, Cui Q. Ancient genes can be served as pan-cancer diagnostic and prognostic biomarkers.J Cell Mol Med. 2020 Jun;24(12):6908-6915. doi: 10.1111/jcmm.15347.

31.Chen Z, Liu X, Luo Y, Wang J, Meng Y, Sun L, Chang Y, Cui Q, Yang J. Repurposing Doxepin to Ameliorate Steatosis and Hyperglycemia by Activating FAM3A Signaling Pathway. Diabetes. 2020 Jun;69(6):1126-1139. doi: 10.2337/db19-1038.

32.Xiang R, Chen J, Li S, Yan H, Meng Y, Cai J, Cui Q, Yang Y, Xu M, Geng B, Yang J. VSMC-Specific Deletion of FAM3A Attenuated Ang II-Promoted Hypertension and Cardiovascular Hypertrophy. Circ Res. 2020 Jun 5;126(12):1746-1759. doi: 10.1161/CIRCRESAHA.119.315558.

33.Cui C, Cui Q. The relationship of human tissue microRNAs with those from body fluids. Sci Rep. 2020 Mar 27;10(1):5644. doi: 10.1038/s41598-020-62534-6.

34.Jia K, Zhou Y, Cui Q. Quantifying Gene Essentiality Based on the Context of Cellular Components. Front Genet. 2020 Jan 21;10:1342. doi: 10.3389/fgene.2019.01342.

35.Li J, Huang Y, Cui Q, Zhou Y. m6Acorr: an online tool for the correction and comparison of m6A methylation profiles. BMC Bioinformatics. 2020 Jan 29;21(1):31. doi: 10.1186/s12859-020-3380-6.

36.Jia K, Gao Y, Shi J, Zhou Y, Zhou Y, Cui Q. Annotation and curation of the causality information in LncRNADisease. Database (Oxford). 2020 Jan 1;2020:baz150. doi: 10.1093/database/baz150.

37.Huang Z, Liu L, Gao Y, Shi J, Cui Q, Li J, Zhou Y. Benchmark of computational methods for predicting microRNA-disease associations. Genome Biol. 2019 Oct 8;20(1):202.

38.Gao Y, Jia K, Shi J, Zhou Y, Cui Q. A computational model to predict the causal miRNAs for diseases. Frontiers in Genetics 2019, 02 October,doi: 10.3389/fgene.2019.00935.

39.Zhao W, Zhou Y, Cui Q, Zhou Y. PACES: prediction of N4-acetylcytidine (ac4C) modification sites in mRNA. Sci Rep. 2019 Jul 31;9(1):11112. doi: 10.1038/s41598-019-47594-7.

40.Cui C, Shi B, Shi J, Zhou Y, and Cui Q. Defining the Importance Score of Human MicroRNAs and Their Single Nucleotide Mutants Using Random Forest Regression and Sequence Data. Advanced Theory and Simulation. 2019. doi: 10.1002/adts.201900083.

41.Zhang J, Wang J, Li F, Zhu M, Wang S, Cui Q, Yuan G, Zhou J, Xu M. Normal expression of KCNJ11 is maintained by the G-quadruplex. Int J Biol Macromol. 2019 Jul 17;138:504-510. doi: 10.1016/j.ijbiomac.2019.07.094. [Epub ahead of print]

42.Fan J, Zheng F, Li S, Cui C, Jiang S, Zhang J, Cai J, Cui Q, Yang J, Tang X, Xu G, Geng B. Hydrogen sulfide lowers hyperhomocysteinemia dependent on cystathionine γ lyase S-sulfhydration in ApoE-knockout atherosclerotic mice. Br J Pharmacol. 2019 May 29. doi: 10.1111/bph.14719. [Epub ahead of print]

43.Yang W, Feng B, Meng Y, Wang J, Geng B, Cui Q, Zhang H, Yang Y, Yang J. FAM3C-YY1 axis is essential for TGFβ-promoted proliferation and migration of human breast cancer MDA-MB-231 cells via the activation of HSF1. J Cell Mol Med. 2019 May;23(5):3464-3475

44.Li J, Zhang S, Wan Y, Zhao Y, Shi J, Zhou Y, Cui Q. MISIM v2.0: a web server for inferring microRNA functional similarity based on microRNA-disease associations. Nucleic Acids Res. 2019 May 9.pii: gkz328. [Epub ahead of print]

45.Cui A, Fan H, Zhang Y, Zhang Y, Niu D, Liu S, Liu Q, Ma W, Shen Z, Shen L, Liu Y, Zhang H, Xue Y, Cui Y, Wang Q, Xiao X, Fang F, Yang J, Cui Q, Chang Y. Dexamethasone-induced Krüppel-like factor 9 expression promotes hepatic gluconeogenesis and hyperglycemia. J Clin Invest. 2019 Apr 29;130. pii: 66062.

46.Feng X, Wang E, Cui Q. Gene Expression-Based Predictive Markers for Paclitaxel Treatment in ER+ and ER- Breast Cancer. Front Genet. 2019 Mar 1;10:156.

47.Huang Z, Shi J, Gao Y, Cui C, Zhang S, Li J, Zhou Y, and Cui Q. HMDD v3.0: a database for experimentally supported human microRNA-disease associations. Nucleic Acids Res. 2019 Jan 8;47(D1):D1013-D1017.

48.Bao Z, Yang Z, Huang Z, Zhou Y, Zhao Z, Ren Y, Cui Q, and Dong D. LncRNADisease 2.0: an updated database of long non-coding RNA-associated diseases. Nucleic Acids Res. 2019 Jan 8;47(D1):D1034-D1037.

49.Tong Z, Cui Q, Wang J, Zhou Y. TransmiR v2.0: an updated transcription factor-microRNA regulation database. Nucleic Acids Res. 2019 Jan 8;47(D1):D253-D258.

50.Sun X, Lv H, Zhao P, He J, Cui Q, Wei M, Feng S, Zhu Y. Commutative regulation between endothelial NO synthase and insulin receptor substrate 2 by microRNAs. J Mol Cell Biol. 2018 Oct 8. doi: 10.1093/jmcb/mjy055. [Epub ahead of print]

51.Sun R, Cui C, Zhou Y, and Cui Q. AGD: Aneurysm Gene Database. DATABASE. 2018, 1-6. doi: 10.1093/database/bay100.

52.Cui C, Huang C, Liu K, Xu G, Yang J, Zhou Y, Feng Y, Kararigas G, Geng B, and Cui Q. Large-scale in-silico identification of drugs exerting sex-specific effects in the heart. Journal of Translational Medicine. 2018 Aug 29;16(1):236.

53.Zeng P, Chen J, Meng Y, Zhou Y, Yang J, and Cui Q. Defining essentiality score of protein-coding genes and long noncoding RNAs. Frontiers in Genetics. 2018, 9:380.

54.Song F, Cui C, Gao L, and Cui Q. miES: predicting the essentiality of miRNAs with machine learning and sequence features. Bioinformatics. 2018 Aug 28. doi: 10.1093/bioinformatics/bty738.

55.Jia K, Cui C, Gao Y, Zhou Y, and Cui Q. An analysis of aging-related genes derived from the Genotype-Tissue Expression (GTEx) project. Cell Death Discovery. 2018 Aug 20;5:26.

56.Zheng F, Han J, Lu H, Cui C, Yang J, Cui Q, Cai J, Zhou Y, Tang C, Xu G, Geng B. Cystathionine beta synthase-hydrogen sulfide system in paraventricular nucleus reduced high fatty diet induced obesity and insulin resistance by brain-adipose axis. Biochim Biophys Acta. 2018 Jul 20. pii: S0925-4439(18)30257-6. doi: 10.1016/j.bbadis.2018.07.014. [Epub ahead of print]

57.Zhou Yiran, Cui Q, and Zhou Yuan. NmSEER: a prediction tool for 2’-O-methylation (Nm) sites based on random forest. has been accepted for oral presentation at the 2018 International Conference on Intelligent Computing, which has been selected into the following Springer-Nature volume: Lecture Notes in Computer Science (LNCS). At the same time, it has also been sub-selected into the following journal: BMC Bioinformatics.

58.Cui C, Yang W, Shi J, Zhou Y, Yang J, Cui Q, and Zhou Y. Identification and Analysis of Human Sex-biased MicroRNAs. Genomics Proteomics Bioinformatics. 2018 Jul 11. pii: S1672-0229(18)30130-X. doi: 10.1016/j.gpb.2018.03.004. [Epub ahead of print]

59.Xu H, Wang Y, Lin S, Deng W, Peng D, Cui Q, and Xue Y. PTMD: A Database of Disease-associated Post-translational modifications. Genomics, Proteomics & Bioinformatics. 2018 Sep 20. pii: S1672-0229(18)30318-8.

60.Huang C, Yang W, Wang J, Zhou Y, Geng B, Kararigas G, Yang J, and Cui Q. The DrugPattern tool for drug set enrichment analysis and its prediction for beneficial effects of oxLDL on type 2 diabetes. J Genet Genomics. 2018 Jul 24. pii: S1673-8527(18)30122-X. doi: 10.1016/j.jgg.2018.07.002. [Epub ahead of print]

61.Ma W, Chen J, Meng Y, Yang J, Cui Q, and Zhou Y. Metformin alters gut microbiota of healthy mice: implication for its potential role in gut microbiota homeostasis. Front Microbiol. 2018 Jun 22;9:1336. doi: 10.3389/fmicb.2018.01336. eCollection 2018.

62.Li J, Han X, Wan Y, Zhang S, Zhao Y, Fan R, Cui Q, Zhou Y. TAM 2.0: tool for MicroRNA set analysis. Nucleic Acids Res. 2018 Jun 6. doi: 10.1093/nar/gky509. [Epub ahead of print]

63.Zhou Y, Cui Q. Comparative Analysis of Human Genes Frequently and Occasionally Regulated by m6A Modification. Genomics, Proteomics & Bioinformatics. 2018 Apr;16(2):127-135. doi: 10.1016/j.gpb.2018.01.001. Epub 2018 May 3.

64.Guo J, Zhou Y, Cheng Y, Fang W, Hu G, Wei J, Lin Y, Man Y, Guo L, Sun M, Cui Q, Li J. Metformin-Induced Changes of the Coding Transcriptome and Non-Coding RNAs in the Livers of Non-Alcoholic Fatty Liver Disease Mice. Cell Physiol Biochem. 2018;45(4):1487-1505. doi: 10.1159/000487575. Epub 2018 Feb 16.

65.Wang J, Yang W, Chen Z, Chen J, Meng Y, Feng B, Sun L, Dou L, Li J, Cui Q, Yang J. Long non-coding RNA LncSHGL recruits hnRNPA1 to suppress hepatic gluconeogenesis and lipogenesis. Diabetes. 2018 Apr;67(4):581-593. doi: 10.2337/db17-0799. Epub 2018 Jan 30.

66.Du C, Lin X, Xu W, Zheng F, Cai J, Yang J, Cui Q, Tang C, Cai J, Xu G, Geng B.Sulfhydrated sirtuin-1 increasing its deacetylation activity is an essential epigenetics mechanism of anti-atherogenesis by hydrogen sulfide. Antioxid Redox Signal. 2018 Feb 26. doi: 10.1089/ars.2017.7195.

67.Jin L, Lin X, Yang L, Fan X, Wang W, Li S, Li J, Liu X, Bao M, Cui X, Yang J, Cui Q, Geng B, Cai J.AK098656, a Novel Vascular Smooth Muscle Cell-Dominant Long Noncoding RNA, Promotes Hypertension.Hypertension. 2018 Feb;71(2):262-272.

68.Chen Z, Wang J, Yang W, Chen J, Meng Y, Feng B, Chi Y, Geng B, Zhou Y, Cui Q, Yang J. FAM3C activates HSF1 to suppress hepatic gluconeogenesis and attenuate hyperglycemia of type 1 diabetic mice.Oncotarget. 2017 Nov 20;8(62):106038-106049.

69.Chen Z, Wang J, Yang W, Chen J, Meng Y, Geng B, Cui Q, Yang J. FAM3A mediates PPARγ's protection in liver ischemia-reperfusion injury by activating Akt survival pathway and repressing inflammation and oxidative stress. Oncotarget. 2017 Jul 25;8(30):49882-49896.

70.Zhu Y, Xiong K, Shi J, Cui Q, Xue L. A potential role of microRNAs in protein accumulation in cellular senescence analyzed by bioinformatics. PLoS One. 2017 Jun 7;12(6):e0179034.

71.Liu X, Zeng P, Cui Q, Zhou Y. Comparative analysis of genes frequently regulated by drugs based on connectivity map transcriptome data. PLoS One. 2017 Jun 2;12(6):e0179037.

72.Chi Y, Li J, Li N, Chen Z, Ma L, Peng W, Pan X, Li M, Yu W, He X, Geng B, Cui Q, Liu Y, Yang J. FAM3A enhances adipogenesis of 3T3-L1 preadipocytes via activation of ATP-P2 receptor-Akt signaling pathway.Oncotarget. 2017 Jul 11;8(28):45862-45873.

73.Yang W, Wang J, Chen Z, Chen J, Meng Y, Chen L, Chang Y, Geng B, Sun L, Dou L, Li J, Guan Y, Cui Q, Yang J. NFE2 Induces miR-423-5p to Promote Gluconeogenesis and Hyperglycemia by Repressing the Hepatic FAM3A-ATP-Akt Pathway.Diabetes. 2017 Jul;66(7):1819-1832.

74.Chen Z, Ding L, Yang W, Wang J, Chen L, Chang Y, Geng B, Cui Q, Guan Y, Yang J. Hepatic Activation of the FAM3C-HSF1-CaM Pathway Attenuates Hyperglycemia of Obese Diabetic Mice.Diabetes. 2017 May;66(5):1185-1197.

75.Xu W, Zhou Y, Xu G, Geng B, Cui Q. Transcriptome analysis reveals non-identical microRNA profiles between arterial and venous plasma. Oncotarget. 2017 Feb 14. doi: 10.18632/oncotarget.15310.

76.Zheng Y, Liao F, Lin X, Zheng F, Fan J, Cui Q, Yang J, Geng B, Cai J. Cystathionine γ-Lyase-Hydrogen Sulfide Induces Runt-Related Transcription Factor 2 Sulfhydration, Thereby Increasing Osteoblast Activity to Promote Bone Fracture Healing.Antioxid Redox Signal. 2017 Oct 10;27(11):742-753.

77.Li J, Zhao F, Wang Y, Chen J, Tao J, Tian G, Wu S, Liu W, Cui Q, Geng B, Zhang W, Weldon R, Auguste K, Yang L, Liu X, Chen L, Yang X, Zhu B, Cai J. Gut microbiota dysbiosis contributes to the development of hypertension.Microbiome. 2017 Feb 1;5(1):14.

78.Ma W, Huang C, Zhou Y, Li J, Cui Q. MicroPattern: a web-based tool for microbe set enrichment analysis and disease similarity calculation based on a list of microbes. Sci Rep. 2017 Jan 10;7:40200. doi: 10.1038/srep40200.

79.Guo S, Zhou Y, Zeng P, Xu G, Wang G, and Cui Q. Identification and analysis of the human sex-biased genes. Briefings in Bioinformatics 2016 Dec 27. pii: bbw125. doi: 10.1093/bib/bbw125. [Epub ahead of print].

80.Fu Y, Gao C, Liang Y, Wang M, Huang Y, Ma W, Li T, Jia Y, Yu F, Zhu W, Cui Q, Li Y, Xu Q, Wang X, Kong W. Shift of Macrophage Phenotype Due to Cartilage Oligomeric Matrix Protein Deficiency Drives Atherosclerotic Calcification.Circ Res. 2016 Jul 8;119(2):261-76.

81.Fang L, Zhang M, Li Y, Liu Y, Cui Q, Wang N. PPARgene: A Database of Experimentally Verified and Computationally Predicted PPAR Target Genes.PPAR Res. 2016;2016:6042162.

82.Zhou Y, Zeng P, Li Y, Zhang Z, Cui Q. SRAMP: prediction of mammalian N6-methyladenosine (m6A) sites based on sequence-derived features. Nucleic Acids Res 2016 Jun 2;44(10):e91.

83.Wang J, Ma R, Ma W, Chen J, Yang J, Xi Y, Cui Q. LncDisease: a sequence based bioinformatics tool for predicting lncRNA-disease associations. Nucleic Acids Res 2016 May 19;44(9):e90.

84.Shi B, Guo H, Zhang T, Cui Q. Analysis of plasma microRNA expression profiles revealed different cancer susceptibility in healthy young adult smokers and middle-aged smokers. Oncotarget 2016 Apr 19; 7(16):21676-85.

85.Ma W, Zhang L, Zeng P, Huang C, Li J, Geng B, Yang J, Kong W, Zhou X, and Cui Q. An analysis of human microbe-disease associations. Briefings in Bioinformatics 2016 Feb 15. pii: bbw005. [Epub ahead of print]

86.Zhang C, Lu J, Liu B, Cui Q, Wang Y. Primate-specific miR-603 is implicated in the risk and pathogenesis of Alzheimer's disease. Aging (Albany NY). 2016 Feb 8. [Epub ahead of print]

87.Zeng P, Cui Q. Rsite2: an efficient computational method to predict the functional sites of noncoding RNAs. Sci Rep. 2016 Jan 11;6:19016.

88.Liao F, Zheng Y, Cai J, Fan J, Wang J, Yang J, Cui Q, Xu G, Tang C, Geng B. Catestatin attenuates endoplasmic reticulum induced cell apoptosis by activation type 2 muscarinic acetylcholine receptor in cardiac ischemia/reperfusion. Sci Rep. 2015 Nov 16;5:16590.

89.Zhang K, Li T, Fu Y, Cui Q, Kong W. Predicting Abdominal Aortic Aneurysm Target Genes by Level-2 Protein-Protein Interaction. PLoS One. 2015 Oct 23;10(10):e0140888.

90.Wang Y, Qiu C, Cui Q. A Large-Scale Analysis of the Relationship of Synonymous SNPs Changing MicroRNA Regulation with Functionality and Disease.Int J Mol Sci. 2015 Sep 30;16(10):23545-55.

91.Chen Z, Luo Y, Yang W, Ding L, Wang J, Tu J, Geng B, Cui Q, Yang J. Comparison Analysis of Dysregulated LncRNA Profile in Mouse Plasma and Liver after Hepatic Ischemia/Reperfusion Injury. PLoS One. 2015 Jul 29;10(7):e0133462.

92.Zeng H, Qiu C, Cui Q. Drug-Path: a database for drug-induced pathways. Database (Oxford). 2015 Jun 30;2015:bav061.

93.Li YH, Zhang G, Cui Q. PPUS: a web server to predict PUS-specific pseudouridine sites. Bioinformatics. 2015 Oct 15;31(20):3362-4.

94.Zeng P, Li J, Ma W, Cui Q. Rsite: a computational method to identify the functional sites of noncoding RNAs. Sci Rep. 2015 Mar 17;5:9179.

95.Li J, Ma W, Zeng P, Wang J, Geng B, Yang J, and Cui Q. LncTar: a tool for predicting the RNA targets of long noncoding RNAs. Briefings in Bioinformatics 2015 16(5):806-12.

96.Li J, Gao C, Wang Y, Ma W, Tu J, Wang J, Chen Z, Kong W, and Cui Q. A bioinformatics method for predicting long noncoding RNAs associated with vascular disease. Science China Life Sciences 2014 57(8):852-7.

97.Jin L, Tu J, Jia J, An W, Tan H, Cui Q, and Li Z. Drug-repurposing identified the combination of Trolox C and Cytisine for the treatment of type 2 diabetes. Journal of Translational Medicine 2014 12:153.

98.Jia S, Chen Z, Li J, Chi Y, Wang J, Li S, Luo Y, Geng B, Wang C, Cui Q, Guan Y, Yang J. FAM3A promotes vascular smooth muscle cell proliferation and migration and exacerbates neointima formation in rat artery after balloon injury. J Mol Cell Cardiol 2014 74C:173-182.

99.Liu M, Chen X, Cui Q, and Yan G. A framework to infer the disease associated with human long noncoding RNAs. PLoS ONE 2014 9(1): e84408.

100.Li Y, Qiu C, Tu J, Geng B, Yang J, Jiang T, and Cui Q.HMDD v2. 0: a database for experimentally supported human microRNA and disease associations. Nucleic Acids Research , 2014, 42(D1), D1070-D1074.