利用 RNA 测序对腕管综合征中差异表达基因的生物信息学分析。

IF 1.3 4区 医学 Q4 PUBLIC, ENVIRONMENTAL & OCCUPATIONAL HEALTH
Maziar Oveisee, Akram Gholipour, Mahrokh Bagheri Moghaddam, Mahshid Malakootian
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引用次数: 0

摘要

背景:腕管综合征(CTS)是一种常见疾病,由腕部正中神经卡压所致。尽管腕管综合征(在普通人群中的发病率为 5%-10%)是最常见的神经病变,但其分子机制仍有待阐明。我们利用生物信息学方法检测了 CTS 中表达差异的基因,并介绍了其中涉及的分子调控非编码 RNA 和信号通路:方法:从 GEO 获取 CTS 患者和对照组的 RNA 测序原始文件(登录号:GSE108023),并对样本进行分析。对差异表达基因的信号通路、生物学过程、分子功能和细胞成分进行了功能分析。此外,还对差异表达基因与 miRNA 和 lncRNA 之间的相互作用进行了生物信息学研究:结果:观察到上调和下调的基因分别为 790 个和 922 个。信号通路分析发现,花生四烯酸、亚油酸和酪氨酸代谢通路是 CTS 中最重要的通路。此外,磷脂酶家族的 PLA2G2D 和 PLA2G2A 表达上调,PLA2G2F、PLA2G4F、PLA2G4D、PLA2G3 和 PLA2G4E 表达下调,这些基因在通路中发挥了重要作用。进一步分析表明,hsa-miR-3150b-3p靶向PLA2G2A和PLA2G4F,RP11-573D15.8-018 lncRNA与上述基因存在调控相互作用:结论:对 CTS 的分子研究将阐明所涉及的信号通路,并为生物医学研究、药物开发和临床应用提供重要数据。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Bioinformatics Analysis of Differentially Expressed Genes in Carpal Tunnel Syndrome Using RNA Sequencing.

Background: Carpal tunnel syndrome (CTS) is a common disease resulting from the median nerve entrapment at the wrist. Although CTS (prevalence=5%-10% in the general population) is the most common neuropathy, its molecular mechanisms need elucidation. We used bioinformatics to detect genes with differential expressions in CTS and introduce the molecular regulatory noncoding RNAs and signaling pathways involved.

Methods: The raw files of the RNA sequencing of CTS patients and controls were obtained from GEO (accession: GSE108023), and the samples were analyzed. Differentially expressed genes were isolated using DESeq2 R. Functional analyses were conducted on the signaling pathways, biological processes, molecular functions, and cellular components of the differentially expressed genes. Additionally, interactions between the most differentially expressed genes and miRNAs and lncRNAs were investigated bioinformatically.

Results: Upregulation and downregulation were observed in 790 and 922 genes, respectively. The signaling pathway analysis identified the metabolism pathways of arachidonic acid, linoleic acid, and tyrosine as the most significant pathways in CTS. Moreover, PLA2G2D and PLA2G2A with upregulated expressions and PLA2G2F, PLA2G4F, PLA2G4D, PLA2G3, and PLA2G4E with downregulated expressions were genes from the phospholipase family playing significant roles in the pathways. Further analyses demonstrated that hsa-miR-3150b-3p targeted PLA2G2A and PLA2G4F, and RP11-573D15.8-018 lncRNA had regulatory interactions with the aforementioned genes.

Conclusion: Molecular studies on CTS will clarify the involved signaling pathways and provide critical data for biomedical research, drug development, and clinical applications.

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来源期刊
Iranian Journal of Public Health
Iranian Journal of Public Health PUBLIC, ENVIRONMENTAL & OCCUPATIONAL HEALTH-
CiteScore
2.20
自引率
7.10%
发文量
300
审稿时长
3-8 weeks
期刊介绍: Iranian Journal of Public Health has been continuously published since 1971, as the only Journal in all health domains, with wide distribution (including WHO in Geneva and Cairo) in two languages (English and Persian). From 2001 issue, the Journal is published only in English language. During the last 41 years more than 2000 scientific research papers, results of health activities, surveys and services, have been published in this Journal. To meet the increasing demand of respected researchers, as of January 2012, the Journal is published monthly. I wish this will assist to promote the level of global knowledge. The main topics that the Journal would welcome are: Bioethics, Disaster and Health, Entomology, Epidemiology, Health and Environment, Health Economics, Health Services, Immunology, Medical Genetics, Mental Health, Microbiology, Nutrition and Food Safety, Occupational Health, Oral Health. We would be very delighted to receive your Original papers, Review Articles, Short communications, Case reports and Scientific Letters to the Editor on the above men­tioned research areas.
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