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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...

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Autores principales: Hu, Xiaofeng, Shen, Guilin, Lu, Xiaoli, Ding, Guomin, Shen, Lishui
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Termedia Publishing House 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6425197/
https://www.ncbi.nlm.nih.gov/pubmed/30899302
http://dx.doi.org/10.5114/aoms.2018.75593
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author Hu, Xiaofeng
Shen, Guilin
Lu, Xiaoli
Ding, Guomin
Shen, Lishui
author_facet Hu, Xiaofeng
Shen, Guilin
Lu, Xiaoli
Ding, Guomin
Shen, Lishui
author_sort Hu, Xiaofeng
collection PubMed
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.
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spelling pubmed-64251972019-03-21 Identification of key proteins and lncRNAs in hypertrophic cardiomyopathy by integrated network analysis Hu, Xiaofeng Shen, Guilin Lu, Xiaoli Ding, Guomin Shen, Lishui Arch Med Sci Basic Research 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. Termedia Publishing House 2018-05-04 2019-03 /pmc/articles/PMC6425197/ /pubmed/30899302 http://dx.doi.org/10.5114/aoms.2018.75593 Text en Copyright: © 2018 Termedia & Banach http://creativecommons.org/licenses/by-nc-sa/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) License, allowing third parties to copy and redistribute the material in any medium or format and to remix, transform, and build upon the material, provided the original work is properly cited and states its license.
spellingShingle Basic Research
Hu, Xiaofeng
Shen, Guilin
Lu, Xiaoli
Ding, Guomin
Shen, Lishui
Identification of key proteins and lncRNAs in hypertrophic cardiomyopathy by integrated network analysis
title 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_short 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
topic Basic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6425197/
https://www.ncbi.nlm.nih.gov/pubmed/30899302
http://dx.doi.org/10.5114/aoms.2018.75593
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