Mogal Md Roman, Sompa Sagarika Adhikary, Junayed Asadullah, Mahmod Md Rashel, Abedin Md Zainul, Sikder Md Asaduzzaman
Department of Biochemistry and Molecular Biology, Mawlana Bhashani Science and Technology University, Tangail, 1902, Bangladesh.
Department of Food Technology and Nutritional Science, Mawlana Bhashani Science and Technology University, Tangail, 1902, Bangladesh.
Biochem Biophys Rep. 2022 Mar;29:101219. doi: 10.1016/j.bbrep.2022.101219. Epub 2022 Feb 1.
The pandemic situation of novel coronavirus disease 2019 (COVID-19) is a global threat on our current planet, with its rapid spread and high mortality rate. Sarcoidosis patients are at high risk to COVID-19 severity for having lung injuries as well as treating with immunosuppressive agents. So, physicians are in dilemma whether they should use immunosuppressive agents or not for the patients with sarcoidosis history and COVID-19 infection. Therefore, common factors should be identified to provide effective treatment. For determining the common genes between COVID-19 and sarcoidosis, GSE164805 and GSE18781 were retrieved from the Gene Expression Omnibus (GEO) database. Common upregulated genes were identified by using R language to investigate their involved pathways and gene ontologies (GO). With the aid of the STRING Cytoscape plugin tool, protein-protein interactions (PPIs) network was constructed. From the PPIs network, Hub genes and essential modules were detected by using Cytohubba, and MCODE respectively. For hub genes, TFs, TFs-miRNA, and drug, interaction networks were built through the NetworkAnalyst web platform. A total of 34 common upregulated genes were identified and among them, five hub genes, including TET2, MUC5AC, VDR, NFE2L2, and BCL6 were determined. In addition, a cluster having VDR and NFE2L2 was detected from the PPIs network. Moreover, 32 transcription factors and 9 miRNA were recognized for hub genes. Furthermore, vitamin D and some of its analogous compounds were obtained from the drug interaction network. In conclusion, hub genes identified in this study might have potential roles in modulating COVID-19 infection and sarcoidosis. However, further studies are required to corroborate this study.
2019年新型冠状病毒病（COVID-19）的大流行状况是当前全球面临的一大威胁，其传播迅速且死亡率高。结节病患者因肺部损伤以及使用免疫抑制剂治疗而面临COVID-19重症的高风险。因此，对于有结节病病史且感染了COVID-19的患者，医生在是否使用免疫抑制剂方面陷入两难境地。所以，应确定共同因素以提供有效的治疗。为了确定COVID-19和结节病之间的共同基因，从基因表达综合数据库（GEO）中检索了GSE164805和GSE18781。使用R语言确定共同上调的基因，以研究它们涉及的途径和基因本体（GO）。借助STRING Cytoscape插件工具构建蛋白质-蛋白质相互作用（PPI）网络。从PPI网络中，分别使用Cytohubba和MCODE检测枢纽基因和关键模块。对于枢纽基因，通过NetworkAnalyst网络平台构建转录因子、转录因子- miRNA和药物相互作用网络。共确定了34个共同上调的基因，其中确定了5个枢纽基因，包括TET2、MUC5AC、VDR、NFE2L2和BCL6。此外，从PPI网络中检测到一个包含VDR和NFE2L2的簇。此外，还识别出32个转录因子和9个miRNA作为枢纽基因。此外，从药物相互作用网络中获得了维生素D及其一些类似化合物。总之，本研究中确定的枢纽基因可能在调节COVID-19感染和结节病方面具有潜在作用。然而，需要进一步的研究来证实本研究。
