Department of Emergency and Critical Care Medicine, Jiading District Central Hospital Affiliated Shanghai University of Medicine & Health Sciences, Shanghai, China.
Department of Cardiology, Jiading District Central Hospital Affiliated Shanghai University of Medicine & Health Sciences, Shanghai, China.
J Coll Physicians Surg Pak. 2023 Oct;33(10):1093-1099. doi: 10.29271/jcpsp.2023.10.1093.
To analyse potential molecular mechanisms and identify potential therapeutic regimens and drugs to treat severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and Crohn's disease (CD) through bioinformatics and systems biology.
Bioinformatics Study. Place and Duration of the Study: Jiading District Central Hospital Affiliated Shanghai University of Medicine & Health Sciences, Shanghai, China, from May to December 2022.
The common differentially expressed genes (DEGs) between CD and SARS-CoV-2 infection were identified using two RNA-seq datasets (GSE147507, GSE153974) extracted from Gene Expression Omnibus (GEO). Subsequently, functional enrichment, pathway analysis, and candidate drug analysis were performed using these DEGs.
In total, 44 DEGs were identified as common between CD and SARS-CoV-2 infection. A protein-protein interaction (PPI) network was constructed, hub genes were identified, and critical modules were determined by means of bioinformatics and combinatorial statistical approaches. Functional and pathway analyses conducted under ontological conditions showed a common association between CD and infection with SARS-CoV-2. The common DEGs were then used to identify coregulatory networks of interactions between transcriptional factors and genes, between proteins and medicines, and between DEGs and miRNAs.
Top 10 hub genes including IL6, CXCL1, CSF2, CXCL2, CXCL5, MMP3, PTGS2, CXCL3, SELE, and LCN2 were identified, which may function as potential candidate targets for SARS-CoV-2 infection. Additionally, the identification of certain promising treatment drugs for patients with SARS-CoV-2 infection and CD was also made.
SARS-CoV-2, COVID-19, Drug molecule, Hub gene, Protein-protein interaction (PPI), Gene ontology, Crohn's disease, Differentially expressed genes.
通过生物信息学和系统生物学分析潜在的分子机制，并确定治疗严重急性呼吸综合征冠状病毒 2 (SARS-CoV-2) 和克罗恩病 (CD) 的潜在治疗方案和药物。
生物信息学研究。研究地点和时间：上海大学医学与健康科学附属嘉定区中心医院，中国上海，2022 年 5 月至 12 月。
使用从基因表达综合数据库 (GEO) 中提取的两个 RNA-seq 数据集 (GSE147507、GSE153974)，鉴定 CD 和 SARS-CoV-2 感染之间的共同差异表达基因 (DEG)。随后，使用这些 DEG 进行功能富集、通路分析和候选药物分析。
共鉴定出 44 个 DEG 作为 CD 和 SARS-CoV-2 感染之间的共同基因。通过生物信息学和组合统计方法构建蛋白质-蛋白质相互作用 (PPI) 网络，鉴定出枢纽基因，并确定关键模块。功能和通路分析在本体条件下显示 CD 和 SARS-CoV-2 感染之间存在共同关联。然后，使用这些共同的 DEG 来鉴定转录因子与基因、蛋白质与药物以及 DEG 与 miRNA 之间的核心调控网络的相互作用。
鉴定出包括 IL6、CXCL1、CSF2、CXCL2、CXCL5、MMP3、PTGS2、CXCL3、SELE 和 LCN2 在内的 10 个关键基因，它们可能作为 SARS-CoV-2 感染的潜在候选靶点。此外，还确定了某些有前途的治疗 SARS-CoV-2 感染和 CD 的药物。
SARS-CoV-2、COVID-19、药物分子、枢纽基因、蛋白质-蛋白质相互作用 (PPI)、基因本体、克罗恩病、差异表达基因。
