Transmembrane signaling molecules play a key role in the pathogenesis of IgA nephropathy: a weighted gene co-expression network analysis study

Abstract Background Immunoglobulin A nephropathy (IgAN) is one of the most common primary glomerulonephritis and a serious health concern worldwide; though still the underlying molecular mechanisms of IgAN are yet to be known and there is no efficient treatment for this disease. The main goal of thi...

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Autores principales:	Alieh Gholaminejad, Amir Roointan, Yousof Gheisari
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	IgA nephropathy Weighted gene co-expression network Differentially expressed genes Hub genes Drug target Immunologic diseases. Allergy RC581-607
Acceso en línea:	https://doaj.org/article/1a156e4024c9415ca4f9c8cdc93aee4a
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spelling	oai:doaj.org-article:1a156e4024c9415ca4f9c8cdc93aee4a2021-12-05T12:05:47ZTransmembrane signaling molecules play a key role in the pathogenesis of IgA nephropathy: a weighted gene co-expression network analysis study10.1186/s12865-021-00468-y1471-2172https://doaj.org/article/1a156e4024c9415ca4f9c8cdc93aee4a2021-12-01T00:00:00Zhttps://doi.org/10.1186/s12865-021-00468-yhttps://doaj.org/toc/1471-2172Abstract Background Immunoglobulin A nephropathy (IgAN) is one of the most common primary glomerulonephritis and a serious health concern worldwide; though still the underlying molecular mechanisms of IgAN are yet to be known and there is no efficient treatment for this disease. The main goal of this study was to explore the IgAN underlying pathogenic pathways, plus identifying the disease correlated modules and genes using the weighted gene co-expression network analysis (WGCNA) algorithm. Results GSE104948 dataset (the expression data from glomerular tissue of IgAN patients) was analyzed and the identified differentially expressed genes (DEGs) were introduced to the WGCNA algorithm for building co-expression modules. Genes were classified into six co-expression modules. Genes of the disease’s most correlated module were mainly enriched in the immune system, cell–cell communication and transmembrane cell signaling pathways. The PPI network was constructed by genes in all the modules and after hub-gene identification and validation steps, 11 genes, mostly transmembrane proteins (CD44, TLR1, TLR2, GNG11, CSF1R, TYROBP, ITGB2, PECAM1), as well as DNMT1, CYBB and PSMB9 were identified as potentially key players in the pathogenesis of IgAN. In the constructed regulatory network, hsa-miR-129-2-3p, hsa-miR-34a-5p and hsa-miR-27a-3p, as well as STAT3 were spotted as top molecules orchestrating the regulation of the hub genes. Conclusions The excavated hub genes from the hearts of co-expressed modules and the PPI network were mostly transmembrane signaling molecules. These genes and their upstream regulators could deepen our understanding of IgAN and be considered as potential targets for hindering its progression.Alieh GholaminejadAmir RoointanYousof GheisariBMCarticleIgA nephropathyWeighted gene co-expression networkDifferentially expressed genesHub genesDrug targetImmunologic diseases. AllergyRC581-607ENBMC Immunology, Vol 22, Iss 1, Pp 1-17 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	IgA nephropathy Weighted gene co-expression network Differentially expressed genes Hub genes Drug target Immunologic diseases. Allergy RC581-607
spellingShingle	IgA nephropathy Weighted gene co-expression network Differentially expressed genes Hub genes Drug target Immunologic diseases. Allergy RC581-607 Alieh Gholaminejad Amir Roointan Yousof Gheisari Transmembrane signaling molecules play a key role in the pathogenesis of IgA nephropathy: a weighted gene co-expression network analysis study
description	Abstract Background Immunoglobulin A nephropathy (IgAN) is one of the most common primary glomerulonephritis and a serious health concern worldwide; though still the underlying molecular mechanisms of IgAN are yet to be known and there is no efficient treatment for this disease. The main goal of this study was to explore the IgAN underlying pathogenic pathways, plus identifying the disease correlated modules and genes using the weighted gene co-expression network analysis (WGCNA) algorithm. Results GSE104948 dataset (the expression data from glomerular tissue of IgAN patients) was analyzed and the identified differentially expressed genes (DEGs) were introduced to the WGCNA algorithm for building co-expression modules. Genes were classified into six co-expression modules. Genes of the disease’s most correlated module were mainly enriched in the immune system, cell–cell communication and transmembrane cell signaling pathways. The PPI network was constructed by genes in all the modules and after hub-gene identification and validation steps, 11 genes, mostly transmembrane proteins (CD44, TLR1, TLR2, GNG11, CSF1R, TYROBP, ITGB2, PECAM1), as well as DNMT1, CYBB and PSMB9 were identified as potentially key players in the pathogenesis of IgAN. In the constructed regulatory network, hsa-miR-129-2-3p, hsa-miR-34a-5p and hsa-miR-27a-3p, as well as STAT3 were spotted as top molecules orchestrating the regulation of the hub genes. Conclusions The excavated hub genes from the hearts of co-expressed modules and the PPI network were mostly transmembrane signaling molecules. These genes and their upstream regulators could deepen our understanding of IgAN and be considered as potential targets for hindering its progression.
format	article
author	Alieh Gholaminejad Amir Roointan Yousof Gheisari
author_facet	Alieh Gholaminejad Amir Roointan Yousof Gheisari
author_sort	Alieh Gholaminejad
title	Transmembrane signaling molecules play a key role in the pathogenesis of IgA nephropathy: a weighted gene co-expression network analysis study
title_short	Transmembrane signaling molecules play a key role in the pathogenesis of IgA nephropathy: a weighted gene co-expression network analysis study
title_full	Transmembrane signaling molecules play a key role in the pathogenesis of IgA nephropathy: a weighted gene co-expression network analysis study
title_fullStr	Transmembrane signaling molecules play a key role in the pathogenesis of IgA nephropathy: a weighted gene co-expression network analysis study
title_full_unstemmed	Transmembrane signaling molecules play a key role in the pathogenesis of IgA nephropathy: a weighted gene co-expression network analysis study
title_sort	transmembrane signaling molecules play a key role in the pathogenesis of iga nephropathy: a weighted gene co-expression network analysis study
publisher	BMC
publishDate	2021
url	https://doaj.org/article/1a156e4024c9415ca4f9c8cdc93aee4a
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_version_	1718372239684927488

Transmembrane signaling molecules play a key role in the pathogenesis of IgA nephropathy: a weighted gene co-expression network analysis study

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