Weighed Gene Coexpression Network Analysis Screens the Potential Long Noncoding RNAs and Genes Associated with Progression of Coronary Artery Disease.

Computational and Mathematical Methods in Medicine
Lang WangLiang Zhang

Abstract

Coronary artery disease (CAD) is a type of heart disease with a high morbidity rate. This study is aimed at identifying potential biomarkers closely related to the progression of CAD. A microarray dataset of GSE59867 was downloaded from a public database, Gene Expression Omnibus, which included 46 cases of stable CAD without a history of myocardial infarction (MI), 30 cases of MI without heart failure (HF), and 34 cases of MI with HF. Differentially expressed long noncoding RNAs (DElncRNAs) and mRNAs (DEmRNAs) were identified by the limma package, and functions of DEmRNAs were annotated by Gene Ontology and KEGG pathways. In addition, weighed gene coexpression network analysis (WGCNA) was used to construct a coexpression network of DEmRNAs, and a disease-related lncRNAs-mRNAs-pathway network was constructed. Finally, the datasets of GSE61145 and GSE57338 were used to verify the expression levels of the above highly correlated candidates. A total of 2362 upregulated mRNAs and 2816 downregulated mRNAs, as well as 235 upregulated lncRNAs and 113 downregulated lncRNAs were screened. These genes were significantly enriched in "cytokine-cytokine receptor interaction," "RIG-I-like receptor signaling pathway," and "natural killer cell-...Continue Reading

References

Jul 22, 2004·JAMA : the Journal of the American Medical Association·Véronique L RogerSteven J Jacobsen
Oct 18, 2006·International Journal of Cancer. Journal International Du Cancer·Majida Esslimani-SahlaHenri Rochefort
Dec 31, 2008·BMC Bioinformatics·Peter Langfelder, Steve Horvath
Jan 10, 2009·Nature Protocols·Da Wei HuangRichard A Lempicki
Jul 16, 2010·Cardiovascular Therapeutics·Andreas Eisenreich, Ursula Rauch
Jun 30, 2011·Cardiovascular & Hematological Agents in Medicinal Chemistry·Said AbdallaUrsula Quitterer
Jul 1, 2014·American Journal of Human Genetics·Shurjo K SenLeslie G Biesecker
Jul 18, 2014·PLoS Genetics·Ville-Petteri MäkinenThemistocles L Assimes
Aug 28, 2014·American Journal of Cardiovascular Drugs : Drugs, Devices, and Other Interventions·Hong YaoXiuzhen Han
Dec 22, 2014·Genomics·Yichuan LiuUNKNOWN MAGNet consortium
Jan 22, 2015·Nucleic Acids Research·Matthew E RitchieGordon K Smyth
May 16, 2015·European Journal of Preventive Cardiology·Ke-Fu ZhuNing-Fu Wang
Feb 4, 2016·World Journal of Cardiology·Xuming DaiMarschall S Runge
Mar 5, 2016·Oncotarget·Hairong LiuYin-Yuan Mo
Oct 30, 2016·Proceedings of the National Academy of Sciences of the United States of America·Xi WuJian-Ting Zhang
Nov 2, 2016·Nucleic Acids Research·Bethan YatesElspeth A Bruford
Sep 19, 2017·Expert Opinion on Therapeutic Targets·Javier A Menendez, Ruth Lupu
May 4, 2018·Expert Opinion on Investigational Drugs·Alejandro Schcolnik-CabreraAlfonso Dueñas-González
Sep 5, 2019·Clinical Endocrinology·Alexandra E ButlerStephen L Atkin

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Datasets Mentioned

BETA
GPL6244
GSE61145
GSE57338
GSE59867
GSE90074

Methods Mentioned

BETA
chip

Software Mentioned

R
pheatmap
WGCNA
limma
gene coexpression network analysis ( WGCNA )
Cytoscape
DAVID

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