Jiabei He1,2, Xinglong Li1, Yao Zhang1, Qingqing Zhang1, Lianhong Li1. 1. Department of Pathology and Forensic Medicine, Dalian Medical University, Dalian 116044, China. 2. Department of Ultrasound, The Second Affiliated Hospital of Dalian Medical University, Dalian 116027, China.
Abstract
BACKGROUND: Coronary artery disease (CAD) is one of the most common causes of sudden death with high morbidity in recent years. This paper is aimed at exploring the early peripheral blood biomarkers of sudden death and providing a new perspective for clinical diagnosis and forensic pathology identification by integrated bioinformatics analysis. METHODS: Two microarray expression profiling datasets (GSE113079 and GSE31568) were downloaded from the Gene Expression Omnibus (GEO) database, and we identified differentially expressed lncRNAs, miRNAs, and mRNAs in CAD. Gene Ontology (GO) and KEGG pathway analyses of DEmRNAs were executed. A protein-protein interaction (PPI) network was constructed, and hub genes were identified. Finally, we constructed a competitive endogenous RNA (ceRNA) regulation network among lncRNAs, miRNAs, and mRNAs. Also, the 5 miRNAs of the ceRNA network were verified by RT-PCR. RESULTS: In total, 86 DElncRNAs, 148 DEmiRNAs, and 294 DEmRNAs were dysregulated in CAD. We received 12 GO terms and 5 pathways of DEmRNAs. 31 nodes and 78 edges were revealed in the PPI network. The top 10 genes calculated by degree method were identified as hub genes. Moreover, there were a total of 26 DElncRNAs, 5 DEmiRNAs, and 13 DEmRNAs in the ceRNA regulation network. We validated the 5 miRNAs of the ceRNA network by RT-PCR, which were consistent with the results of the microarray. CONCLUSIONS: In this paper, a CAD-specific ceRNA network was successfully constructed, contributing to the understanding of the relationship among lncRNAs, miRNAs, and mRNAs. We identified potential peripheral blood biomarkers in CAD and provided novel insights into the development and progress of CAD.
BACKGROUND: Coronary artery disease (CAD) is one of the most common causes of sudden death with high morbidity in recent years. This paper is aimed at exploring the early peripheral blood biomarkers of sudden death and providing a new perspective for clinical diagnosis and forensic pathology identification by integrated bioinformatics analysis. METHODS: Two microarray expression profiling datasets (GSE113079 and GSE31568) were downloaded from the Gene Expression Omnibus (GEO) database, and we identified differentially expressed lncRNAs, miRNAs, and mRNAs in CAD. Gene Ontology (GO) and KEGG pathway analyses of DEmRNAs were executed. A protein-protein interaction (PPI) network was constructed, and hub genes were identified. Finally, we constructed a competitive endogenous RNA (ceRNA) regulation network among lncRNAs, miRNAs, and mRNAs. Also, the 5 miRNAs of the ceRNA network were verified by RT-PCR. RESULTS: In total, 86 DElncRNAs, 148 DEmiRNAs, and 294 DEmRNAs were dysregulated in CAD. We received 12 GO terms and 5 pathways of DEmRNAs. 31 nodes and 78 edges were revealed in the PPI network. The top 10 genes calculated by degree method were identified as hub genes. Moreover, there were a total of 26 DElncRNAs, 5 DEmiRNAs, and 13 DEmRNAs in the ceRNA regulation network. We validated the 5 miRNAs of the ceRNA network by RT-PCR, which were consistent with the results of the microarray. CONCLUSIONS: In this paper, a CAD-specific ceRNA network was successfully constructed, contributing to the understanding of the relationship among lncRNAs, miRNAs, and mRNAs. We identified potential peripheral blood biomarkers in CAD and provided novel insights into the development and progress of CAD.
Authors: Glynn Dennis; Brad T Sherman; Douglas A Hosack; Jun Yang; Wei Gao; H Clifford Lane; Richard A Lempicki Journal: Genome Biol Date: 2003-04-03 Impact factor: 13.583
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Authors: Benjamin Meder; Frank Rühle; Tanja Weis; Georg Homuth; Andreas Keller; Jennifer Franke; Barbara Peil; Justo Lorenzo Bermejo; Karen Frese; Andreas Huge; Anika Witten; Britta Vogel; Jan Haas; Uwe Völker; Florian Ernst; Alexander Teumer; Philipp Ehlermann; Christian Zugck; Frauke Friedrichs; Heyo Kroemer; Marcus Dörr; Wolfgang Hoffmann; Bernhard Maisch; Sabine Pankuweit; Volker Ruppert; Thomas Scheffold; Uwe Kühl; Hans-Peter Schultheiss; Reinhold Kreutz; Georg Ertl; Christiane Angermann; Philippe Charron; Eric Villard; Françoise Gary; Richard Isnard; Michel Komajda; Matthias Lutz; Thomas Meitinger; Moritz F Sinner; H-Erich Wichmann; Michael Krawczak; Boris Ivandic; Dieter Weichenhan; Goetz Gelbrich; Nour-Eddine El-Mokhtari; Stefan Schreiber; Stephan B Felix; Gerd Hasenfuß; Arne Pfeufer; Norbert Hübner; Stefan Kääb; Eloisa Arbustini; Wolfgang Rottbauer; Norbert Frey; Monika Stoll; Hugo A Katus Journal: Eur Heart J Date: 2013-07-12 Impact factor: 29.983