Hub microRNAs and genes in the development of atrial fibrillation identified by weighted gene co-expression network analysis

Abstract Co-expression network may contribute to better understanding molecular interaction patterns underlying cellular processes. To explore microRNAs (miRNAs) expression patterns correlated with AF, we performed weighted gene co-expression network analysis (WGCNA) based on the dataset GSE28954. T...

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Autores principales:	Qiang Qu, Jin-Yu Sun, Zhen-Ye Zhang, Yue Su, Shan-Shan Li, Feng Li, Ru-Xing Wang
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	Atrial fibrillation Weighted gene co-expression network analysis Hub microRNAs Hub genes Inflammation Internal medicine RC31-1245 Genetics QH426-470
Acceso en línea:	https://doaj.org/article/08f0b70aca0e4bca839539b3f073b3f1
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spelling	oai:doaj.org-article:08f0b70aca0e4bca839539b3f073b3f12021-11-21T12:04:23ZHub microRNAs and genes in the development of atrial fibrillation identified by weighted gene co-expression network analysis10.1186/s12920-021-01124-51755-8794https://doaj.org/article/08f0b70aca0e4bca839539b3f073b3f12021-11-01T00:00:00Zhttps://doi.org/10.1186/s12920-021-01124-5https://doaj.org/toc/1755-8794Abstract Co-expression network may contribute to better understanding molecular interaction patterns underlying cellular processes. To explore microRNAs (miRNAs) expression patterns correlated with AF, we performed weighted gene co-expression network analysis (WGCNA) based on the dataset GSE28954. Thereafter, we predicted target genes using experimentally verified databases (ENOCRI, miRTarBase, and Tarbase), and overlapped genes with differentially expressed genes (DEGs) from GSE79768 were identified as key genes. Integrated analysis of association between hub miRNAs and key genes was conducted to screen hub genes. In general, we identified 3 differentially expressed miRNAs (DEMs) and 320 DEGs, predominantly enriched in inflammation-related functional items. Two significant modules (red and blue) and hub miRNAs (hsa-miR-146b-5p and hsa-miR-378a-5p), which highly correlated with AF-related phenotype, were detected by WGCNA. By overlapping the DEGs and predicted target genes, 38 genes were screened out. Finally, 9 genes (i.e. ATP13A3, BMP2, CXCL1, GABPA, LIF, MAP3K8, NPY1R, S100A12, SLC16A2) located at the core region in the miRNA-gene interaction network were identified as hub genes. In conclusion, our study identified 2 hub miRNAs and 9 hub genes, which may improve the understanding of molecular mechanisms and help to reveal potential therapeutic targets against AF.Qiang QuJin-Yu SunZhen-Ye ZhangYue SuShan-Shan LiFeng LiRu-Xing WangBMCarticleAtrial fibrillationWeighted gene co-expression network analysisHub microRNAsHub genesInflammationInternal medicineRC31-1245GeneticsQH426-470ENBMC Medical Genomics, Vol 14, Iss 1, Pp 1-12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Atrial fibrillation Weighted gene co-expression network analysis Hub microRNAs Hub genes Inflammation Internal medicine RC31-1245 Genetics QH426-470
spellingShingle	Atrial fibrillation Weighted gene co-expression network analysis Hub microRNAs Hub genes Inflammation Internal medicine RC31-1245 Genetics QH426-470 Qiang Qu Jin-Yu Sun Zhen-Ye Zhang Yue Su Shan-Shan Li Feng Li Ru-Xing Wang Hub microRNAs and genes in the development of atrial fibrillation identified by weighted gene co-expression network analysis
description	Abstract Co-expression network may contribute to better understanding molecular interaction patterns underlying cellular processes. To explore microRNAs (miRNAs) expression patterns correlated with AF, we performed weighted gene co-expression network analysis (WGCNA) based on the dataset GSE28954. Thereafter, we predicted target genes using experimentally verified databases (ENOCRI, miRTarBase, and Tarbase), and overlapped genes with differentially expressed genes (DEGs) from GSE79768 were identified as key genes. Integrated analysis of association between hub miRNAs and key genes was conducted to screen hub genes. In general, we identified 3 differentially expressed miRNAs (DEMs) and 320 DEGs, predominantly enriched in inflammation-related functional items. Two significant modules (red and blue) and hub miRNAs (hsa-miR-146b-5p and hsa-miR-378a-5p), which highly correlated with AF-related phenotype, were detected by WGCNA. By overlapping the DEGs and predicted target genes, 38 genes were screened out. Finally, 9 genes (i.e. ATP13A3, BMP2, CXCL1, GABPA, LIF, MAP3K8, NPY1R, S100A12, SLC16A2) located at the core region in the miRNA-gene interaction network were identified as hub genes. In conclusion, our study identified 2 hub miRNAs and 9 hub genes, which may improve the understanding of molecular mechanisms and help to reveal potential therapeutic targets against AF.
format	article
author	Qiang Qu Jin-Yu Sun Zhen-Ye Zhang Yue Su Shan-Shan Li Feng Li Ru-Xing Wang
author_facet	Qiang Qu Jin-Yu Sun Zhen-Ye Zhang Yue Su Shan-Shan Li Feng Li Ru-Xing Wang
author_sort	Qiang Qu
title	Hub microRNAs and genes in the development of atrial fibrillation identified by weighted gene co-expression network analysis
title_short	Hub microRNAs and genes in the development of atrial fibrillation identified by weighted gene co-expression network analysis
title_full	Hub microRNAs and genes in the development of atrial fibrillation identified by weighted gene co-expression network analysis
title_fullStr	Hub microRNAs and genes in the development of atrial fibrillation identified by weighted gene co-expression network analysis
title_full_unstemmed	Hub microRNAs and genes in the development of atrial fibrillation identified by weighted gene co-expression network analysis
title_sort	hub micrornas and genes in the development of atrial fibrillation identified by weighted gene co-expression network analysis
publisher	BMC
publishDate	2021
url	https://doaj.org/article/08f0b70aca0e4bca839539b3f073b3f1
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_version_	1718419225733758976

Hub microRNAs and genes in the development of atrial fibrillation identified by weighted gene co-expression network analysis

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