Identification of key proteins and lncRNAs in hypertrophic cardiomyopathy by integrated network analysis

Introduction Hypertrophic cardiomyopathy (HCM), a genetically heterogeneous disorder of cardiac myocytes, is one of the main causes of sudden cardiac death of young people. However, the molecular mechanism involved in HCM has remained largely unclear. Of note, non-coding RNAs were reported to play a...

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Autores principales:	Xiaofeng Hu, Guilin Shen, Xiaoli Lu, Guomin Ding, Lishui Shen
Formato:	article
Lenguaje:	EN
Publicado:	Termedia Publishing House 2019
Materias:	hypertrophic cardiomyopathy differentially expressed gene long non-coding rna expression profiling protein-protein interaction analysis co-expression analysis Medicine R
Acceso en línea:	https://doaj.org/article/f0f30c4ee9554312ab3e53bbd6023ded
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spelling	oai:doaj.org-article:f0f30c4ee9554312ab3e53bbd6023ded2021-12-02T19:15:49ZIdentification of key proteins and lncRNAs in hypertrophic cardiomyopathy by integrated network analysis1734-19221896-915110.5114/aoms.2018.75593https://doaj.org/article/f0f30c4ee9554312ab3e53bbd6023ded2019-03-01T00:00:00Zhttps://www.archivesofmedicalscience.com/Identification-of-key-proteins-and-lncRNAs-in-hypertrophic-cardiomyopathy-by-integrated,89691,0,2.htmlhttps://doaj.org/toc/1734-1922https://doaj.org/toc/1896-9151Introduction Hypertrophic cardiomyopathy (HCM), a genetically heterogeneous disorder of cardiac myocytes, is one of the main causes of sudden cardiac death of young people. However, the molecular mechanism involved in HCM has remained largely unclear. Of note, non-coding RNAs were reported to play an important role in human diseases. In this study, we focused on identifying differentially expressed long non-coding RNA (lncRNAs) and mRNAs in HCM by analyzing a public dataset (GSE36961). Material and methods We performed bioinformatics analysis to explore key pathways underlying HCM progression. Gene Ontology (GO) analysis was first performed to evaluate the potential roles of differentially expressed genes and lncRNAs in HCM. Moreover, protein–protein interaction (PPI) networks were constructed to reveal interactions among differentially expressed proteins. Specifically, co-expression networks were also constructed to identify hub lncRNAs in HCM. Results A total of 6147 mRNAs (p < 0.001) and 126 lncRNAs (p < 0.001) were found to be dysregulated in HCM. Gene Ontology (GO) analysis showed that these differentially expressed genes and lncRNAs were associated with metabolism, energy pathways, signal transduction, and cell communication. Moreover, TSPYL3, LOC401431, LOC158376, LOC606724, PDIA3P and LOH3CR2A (p < 0.001) were identified as key lncRNAs in HCM progression. Conclusions Taken together, our analysis revealed a series of lncRNAs and mRNAs that were differentially expressed in HCM and which were involved in HCM progression by regulating pathways, such as metabolism, energy pathways, signal transduction, and cell communication. This study will provide useful information to explore the mechanisms underlying HCM progression and to provide potential candidate biomarkers for diagnosis in HCM.Xiaofeng HuGuilin ShenXiaoli LuGuomin DingLishui ShenTermedia Publishing Housearticlehypertrophic cardiomyopathydifferentially expressed genelong non-coding rnaexpression profilingprotein-protein interaction analysisco-expression analysisMedicineRENArchives of Medical Science, Vol 15, Iss 2, Pp 484-497 (2019)
institution	DOAJ
collection	DOAJ
language	EN
topic	hypertrophic cardiomyopathy differentially expressed gene long non-coding rna expression profiling protein-protein interaction analysis co-expression analysis Medicine R
spellingShingle	hypertrophic cardiomyopathy differentially expressed gene long non-coding rna expression profiling protein-protein interaction analysis co-expression analysis Medicine R Xiaofeng Hu Guilin Shen Xiaoli Lu Guomin Ding Lishui Shen Identification of key proteins and lncRNAs in hypertrophic cardiomyopathy by integrated network analysis
description	Introduction Hypertrophic cardiomyopathy (HCM), a genetically heterogeneous disorder of cardiac myocytes, is one of the main causes of sudden cardiac death of young people. However, the molecular mechanism involved in HCM has remained largely unclear. Of note, non-coding RNAs were reported to play an important role in human diseases. In this study, we focused on identifying differentially expressed long non-coding RNA (lncRNAs) and mRNAs in HCM by analyzing a public dataset (GSE36961). Material and methods We performed bioinformatics analysis to explore key pathways underlying HCM progression. Gene Ontology (GO) analysis was first performed to evaluate the potential roles of differentially expressed genes and lncRNAs in HCM. Moreover, protein–protein interaction (PPI) networks were constructed to reveal interactions among differentially expressed proteins. Specifically, co-expression networks were also constructed to identify hub lncRNAs in HCM. Results A total of 6147 mRNAs (p < 0.001) and 126 lncRNAs (p < 0.001) were found to be dysregulated in HCM. Gene Ontology (GO) analysis showed that these differentially expressed genes and lncRNAs were associated with metabolism, energy pathways, signal transduction, and cell communication. Moreover, TSPYL3, LOC401431, LOC158376, LOC606724, PDIA3P and LOH3CR2A (p < 0.001) were identified as key lncRNAs in HCM progression. Conclusions Taken together, our analysis revealed a series of lncRNAs and mRNAs that were differentially expressed in HCM and which were involved in HCM progression by regulating pathways, such as metabolism, energy pathways, signal transduction, and cell communication. This study will provide useful information to explore the mechanisms underlying HCM progression and to provide potential candidate biomarkers for diagnosis in HCM.
format	article
author	Xiaofeng Hu Guilin Shen Xiaoli Lu Guomin Ding Lishui Shen
author_facet	Xiaofeng Hu Guilin Shen Xiaoli Lu Guomin Ding Lishui Shen
author_sort	Xiaofeng Hu
title	Identification of key proteins and lncRNAs in hypertrophic cardiomyopathy by integrated network analysis
title_short	Identification of key proteins and lncRNAs in hypertrophic cardiomyopathy by integrated network analysis
title_full	Identification of key proteins and lncRNAs in hypertrophic cardiomyopathy by integrated network analysis
title_fullStr	Identification of key proteins and lncRNAs in hypertrophic cardiomyopathy by integrated network analysis
title_full_unstemmed	Identification of key proteins and lncRNAs in hypertrophic cardiomyopathy by integrated network analysis
title_sort	identification of key proteins and lncrnas in hypertrophic cardiomyopathy by integrated network analysis
publisher	Termedia Publishing House
publishDate	2019
url	https://doaj.org/article/f0f30c4ee9554312ab3e53bbd6023ded
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_version_	1718377006119256064

Identification of key proteins and lncRNAs in hypertrophic cardiomyopathy by integrated network analysis

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