Consensus gene modules related to levels of bone mineral density (BMD) among smokers and nonsmokers

Osteoporosis, as a common metabolic disorder characterized by the decrease of bone mass, can cause fractures, thereby threatening the life quality of females, especially postmenopausal women. Thus, it is necessary to reveal the genes involved in osteoporosis and explore biomarkers for osteoporosis....

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Autores principales:	Bingyuan Lin, Zhijun Pan
Formato:	article
Lenguaje:	EN
Publicado:	Taylor & Francis Group 2021
Materias:	osteoporosis bone mineral density wgcna consensus modules svm-rfe Biotechnology TP248.13-248.65
Acceso en línea:	https://doaj.org/article/42c67ba9bb1e4c7fa9378573565d8fba
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spelling	oai:doaj.org-article:42c67ba9bb1e4c7fa9378573565d8fba2021-11-11T14:23:43ZConsensus gene modules related to levels of bone mineral density (BMD) among smokers and nonsmokers2165-59792165-598710.1080/21655979.2021.2000746https://doaj.org/article/42c67ba9bb1e4c7fa9378573565d8fba2021-11-01T00:00:00Zhttp://dx.doi.org/10.1080/21655979.2021.2000746https://doaj.org/toc/2165-5979https://doaj.org/toc/2165-5987Osteoporosis, as a common metabolic disorder characterized by the decrease of bone mass, can cause fractures, thereby threatening the life quality of females, especially postmenopausal women. Thus, it is necessary to reveal the genes involved in osteoporosis and explore biomarkers for osteoporosis. In this study, two groups, smokers and nonsmokers with different bone mineral density (BMD) levels, were collected from the Gene Expression Omnibus (GEO) database GSE13850. Consensus modules of the two groups were identified; the variety of gene modules between smokers and nonsmokers with different BMD levels was observed; and a consensus module, including 390 genes significantly correlated with different BMD levels, was identified. Function analysis revealed the significantly enriched osteoporosis-related pathways, such as the PI3K-Akt signaling pathway. Hub genes analysis revealed the critical role of CXCL12 and CHRM2 in modules related to BMD levels. Based on the support vector machine recursive feature elimination (SVM-RFE) analysis, the model containing 10 genes (TNS4, IRF2, BSG, GZMM, ARRB2, COX15, RALY, TP53, RPS6KA3, and SYNPO) with good performance in identifying people with different BMD levels was constructed. Among them, the roles of RALY and SYNPO in the osteogenic differentiation of hBMSCs were verified experimentally. Overall, this study provides a strategy to explore the biomarkers for osteoporosis through analysis of consensus modules.Bingyuan LinZhijun PanTaylor & Francis Grouparticleosteoporosisbone mineral densitywgcnaconsensus modulessvm-rfeBiotechnologyTP248.13-248.65ENBioengineered, Vol 0, Iss 0 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	osteoporosis bone mineral density wgcna consensus modules svm-rfe Biotechnology TP248.13-248.65
spellingShingle	osteoporosis bone mineral density wgcna consensus modules svm-rfe Biotechnology TP248.13-248.65 Bingyuan Lin Zhijun Pan Consensus gene modules related to levels of bone mineral density (BMD) among smokers and nonsmokers
description	Osteoporosis, as a common metabolic disorder characterized by the decrease of bone mass, can cause fractures, thereby threatening the life quality of females, especially postmenopausal women. Thus, it is necessary to reveal the genes involved in osteoporosis and explore biomarkers for osteoporosis. In this study, two groups, smokers and nonsmokers with different bone mineral density (BMD) levels, were collected from the Gene Expression Omnibus (GEO) database GSE13850. Consensus modules of the two groups were identified; the variety of gene modules between smokers and nonsmokers with different BMD levels was observed; and a consensus module, including 390 genes significantly correlated with different BMD levels, was identified. Function analysis revealed the significantly enriched osteoporosis-related pathways, such as the PI3K-Akt signaling pathway. Hub genes analysis revealed the critical role of CXCL12 and CHRM2 in modules related to BMD levels. Based on the support vector machine recursive feature elimination (SVM-RFE) analysis, the model containing 10 genes (TNS4, IRF2, BSG, GZMM, ARRB2, COX15, RALY, TP53, RPS6KA3, and SYNPO) with good performance in identifying people with different BMD levels was constructed. Among them, the roles of RALY and SYNPO in the osteogenic differentiation of hBMSCs were verified experimentally. Overall, this study provides a strategy to explore the biomarkers for osteoporosis through analysis of consensus modules.
format	article
author	Bingyuan Lin Zhijun Pan
author_facet	Bingyuan Lin Zhijun Pan
author_sort	Bingyuan Lin
title	Consensus gene modules related to levels of bone mineral density (BMD) among smokers and nonsmokers
title_short	Consensus gene modules related to levels of bone mineral density (BMD) among smokers and nonsmokers
title_full	Consensus gene modules related to levels of bone mineral density (BMD) among smokers and nonsmokers
title_fullStr	Consensus gene modules related to levels of bone mineral density (BMD) among smokers and nonsmokers
title_full_unstemmed	Consensus gene modules related to levels of bone mineral density (BMD) among smokers and nonsmokers
title_sort	consensus gene modules related to levels of bone mineral density (bmd) among smokers and nonsmokers
publisher	Taylor & Francis Group
publishDate	2021
url	https://doaj.org/article/42c67ba9bb1e4c7fa9378573565d8fba
work_keys_str_mv	AT bingyuanlin consensusgenemodulesrelatedtolevelsofbonemineraldensitybmdamongsmokersandnonsmokers AT zhijunpan consensusgenemodulesrelatedtolevelsofbonemineraldensitybmdamongsmokersandnonsmokers
_version_	1718438931685441536

Consensus gene modules related to levels of bone mineral density (BMD) among smokers and nonsmokers

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