Chinese Medical Sciences Journal ›› 2021, Vol. 36 ›› Issue (1): 50-56.doi: 10.24920/003711
收稿日期:
2020-01-08
接受日期:
2020-05-23
出版日期:
2021-03-17
发布日期:
2021-03-17
通讯作者:
何菊
E-mail:hejutian@163.com
Honglin Zu1,Likun Hou1,Hongwei Liu2,Yuanbo Zhan3,Ju He1,*()
Received:
2020-01-08
Accepted:
2020-05-23
Published:
2021-03-17
Online:
2021-03-17
Contact:
Ju He
E-mail:hejutian@163.com
摘要:
目的 应用生物信息学方法识别并挖掘腹主动脉瘤和糖尿病相互作用的候选基因。
方法 采用封闭的生物医学发现支持系统(Biomedical Discovery Support System,BITOLA),筛选与腹主动脉瘤和糖尿病有关的“基因或基因产物”作为候选中间分子(candidate intermediate molecules,CIMs)。通过GSE13760,GSE7084,GSE57691,GSE47472数据集筛选分别与腹主动脉瘤和糖尿病发病相关的差异表达基因(differentially expressed genes,DEGs)。然后,我们通过Venny2.1在线工具,辅以人工阅读文献,筛选出与CIMs重合的差异性表达基因。最后,应用基因表达人体电子荧光可视化浏览器(Human eFP Browser)观测所筛选出的基因的组织特异性表达,确定在动脉和胰腺组织均高表达的候选基因。
结果 应用封闭的生物医学发现支持系统筛选出86个CIMs。在GSE13760,GSE7084,GSE57691,GSE47472数据集与腹主动脉瘤和糖尿病相关的差异表达基因中,我们发现GSE7084数据集中的8个基因(ISG20,ITGAX,DSTN,CCL5,CCR5,AGTR1,CD19,CD44)和GSE13760数据集中的2个基因(PSMD12,FAS)与86个CIMs交叉重叠。通过电子荧光可视化人体基因表达象形图进行组织特异性验证发现,基因PSMD12在主动脉和胰腺组织中均有高表达。
结论 通过生物信息文本挖掘技术我们提出假说,PSMD12可能参与腹主动脉瘤与糖尿病的相互作用,这可能成为研究这两种疾病新型治疗手段的新线索。
Honglin Zu,Likun Hou,Hongwei Liu,Yuanbo Zhan,Ju He. Identify Candidate Genes in the Interaction between Abdominal Aortic Aneurysm and Type 2 Diabetes Mellitus by Using Biomedical Discovery Support System[J].Chinese Medical Sciences Journal, 2021, 36(1): 50-56.
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Disease | Series | Tissue | Subjects | Array platform | Overlap with CIM | |
---|---|---|---|---|---|---|
Control | study | |||||
Abdominal Aortic Aneurysm | GSE7084 | Human abdominal aorta | 2 | 2 | Affymetrix | ISG20, ITGAX, DSTN, CCL5, CCR5, AGTR1, CD19, CD44 |
GSE57691 | Human abdominal aorta | 10 | 49 | Illumina | None | |
GSE47472 | Full thickness aorta biopsy | 8 | 14 | Illumina | None | |
Diabetes Mellitus | GSE13760 | Arterial intima-media | 11 | 10 | Affymetrix | PSMD12, FAS |
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