Comprehensive RNA-Seq Data Analysis Identifies Key mRNAs and lncRNAs in Atrial Fibrillation
Long non-coding RNAs (lncRNAs) are an emerging class of RNA species that may play a critical regulatory role in gene expression. However, the association between lncRNAs and atrial fibrillation (AF) is still not fully understood. In this study, we used RNA sequencing data to identify and quantify th...
| Main Authors: | , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2019-10-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/article/10.3389/fgene.2019.00908/full |
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| author | Dong-Mei Wu Dong-Mei Wu Zheng-Kun Zhou Shao-Hua Fan Shao-Hua Fan Zi-Hui Zheng Xin Wen Xin Wen Xin-Rui Han Xin-Rui Han Shan Wang Shan Wang Yong-Jian Wang Yong-Jian Wang Zi-Feng Zhang Zi-Feng Zhang Qun Shan Qun Shan Meng-Qiu Li Meng-Qiu Li Bin Hu Bin Hu Jun Lu Jun Lu Gui-Quan Chen Xiao-Wu Hong Yuan-Lin Zheng Yuan-Lin Zheng |
| author_facet | Dong-Mei Wu Dong-Mei Wu Zheng-Kun Zhou Shao-Hua Fan Shao-Hua Fan Zi-Hui Zheng Xin Wen Xin Wen Xin-Rui Han Xin-Rui Han Shan Wang Shan Wang Yong-Jian Wang Yong-Jian Wang Zi-Feng Zhang Zi-Feng Zhang Qun Shan Qun Shan Meng-Qiu Li Meng-Qiu Li Bin Hu Bin Hu Jun Lu Jun Lu Gui-Quan Chen Xiao-Wu Hong Yuan-Lin Zheng Yuan-Lin Zheng |
| author_sort | Dong-Mei Wu |
| collection | DOAJ |
| description | Long non-coding RNAs (lncRNAs) are an emerging class of RNA species that may play a critical regulatory role in gene expression. However, the association between lncRNAs and atrial fibrillation (AF) is still not fully understood. In this study, we used RNA sequencing data to identify and quantify the both protein coding genes (PCGs) and lncRNAs. The high enrichment of these up-regulated genes in biological functions concerning response to virus and inflammatory response suggested that chronic viral infection may lead to activated inflammatory pathways, thereby alter the electrophysiology, structure, and autonomic remodeling of the atria. In contrast, the downregulated GO terms were related to the response to saccharides. To identify key lncRNAs involved in AF, we predicted lncRNAs regulating expression of the adjacent PCGs, and characterized biological function of the dysregulated lncRNAs. We found that two lncRNAs, ETF1P2, and AP001053.11, could interact with protein-coding genes (PCGs), which were implicated in AF. In conclusion, we identified key PCGs and lncRNAs, which may be implicated in AF, which not only improves our understanding of the roles of lncRNAs in AF, but also provides potentially functional lncRNAs for AF researchers. |
| first_indexed | 2024-12-20T05:20:17Z |
| format | Article |
| id | doaj.art-0a8a7c208587479eb9eeaaf39d0e4b55 |
| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-12-20T05:20:17Z |
| publishDate | 2019-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Genetics |
| spelling | doaj.art-0a8a7c208587479eb9eeaaf39d0e4b552022-12-21T19:52:01ZengFrontiers Media S.A.Frontiers in Genetics1664-80212019-10-011010.3389/fgene.2019.00908471679Comprehensive RNA-Seq Data Analysis Identifies Key mRNAs and lncRNAs in Atrial FibrillationDong-Mei Wu0Dong-Mei Wu1Zheng-Kun Zhou2Shao-Hua Fan3Shao-Hua Fan4Zi-Hui Zheng5Xin Wen6Xin Wen7Xin-Rui Han8Xin-Rui Han9Shan Wang10Shan Wang11Yong-Jian Wang12Yong-Jian Wang13Zi-Feng Zhang14Zi-Feng Zhang15Qun Shan16Qun Shan17Meng-Qiu Li18Meng-Qiu Li19Bin Hu20Bin Hu21Jun Lu22Jun Lu23Gui-Quan Chen24Xiao-Wu Hong25Yuan-Lin Zheng26Yuan-Lin Zheng27Key Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaKey Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaState Key Laboratory Cultivation Base For TCM Quality and Efficacy, School of Medicine and Life Science, Nanjing University of Chinese Medicine, Nanjing, ChinaKey Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaKey Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaKey Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaKey Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaKey Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaKey Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaKey Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaKey Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaKey Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaState Key Laboratory of Pharmaceutical Biotechnology, MOE Key Laboratory of Model Animal for Disease Study, Model Animal Research Center, Nanjing University, Nanjing, ChinaDepartment of Immunology, School of Basic Medical Sciences, Fudan University, Shanghai, ChinaKey Laboratory for Biotechnology on Medicinal Plants of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, ChinaCollege of Health Sciences, Jiangsu Normal University, Xuzhou, ChinaLong non-coding RNAs (lncRNAs) are an emerging class of RNA species that may play a critical regulatory role in gene expression. However, the association between lncRNAs and atrial fibrillation (AF) is still not fully understood. In this study, we used RNA sequencing data to identify and quantify the both protein coding genes (PCGs) and lncRNAs. The high enrichment of these up-regulated genes in biological functions concerning response to virus and inflammatory response suggested that chronic viral infection may lead to activated inflammatory pathways, thereby alter the electrophysiology, structure, and autonomic remodeling of the atria. In contrast, the downregulated GO terms were related to the response to saccharides. To identify key lncRNAs involved in AF, we predicted lncRNAs regulating expression of the adjacent PCGs, and characterized biological function of the dysregulated lncRNAs. We found that two lncRNAs, ETF1P2, and AP001053.11, could interact with protein-coding genes (PCGs), which were implicated in AF. In conclusion, we identified key PCGs and lncRNAs, which may be implicated in AF, which not only improves our understanding of the roles of lncRNAs in AF, but also provides potentially functional lncRNAs for AF researchers.https://www.frontiersin.org/article/10.3389/fgene.2019.00908/fulllong non-coding RNAsatrial fibrillationRNA-Seqgenesprotein coding genes |
| spellingShingle | Dong-Mei Wu Dong-Mei Wu Zheng-Kun Zhou Shao-Hua Fan Shao-Hua Fan Zi-Hui Zheng Xin Wen Xin Wen Xin-Rui Han Xin-Rui Han Shan Wang Shan Wang Yong-Jian Wang Yong-Jian Wang Zi-Feng Zhang Zi-Feng Zhang Qun Shan Qun Shan Meng-Qiu Li Meng-Qiu Li Bin Hu Bin Hu Jun Lu Jun Lu Gui-Quan Chen Xiao-Wu Hong Yuan-Lin Zheng Yuan-Lin Zheng Comprehensive RNA-Seq Data Analysis Identifies Key mRNAs and lncRNAs in Atrial Fibrillation Frontiers in Genetics long non-coding RNAs atrial fibrillation RNA-Seq genes protein coding genes |
| title | Comprehensive RNA-Seq Data Analysis Identifies Key mRNAs and lncRNAs in Atrial Fibrillation |
| title_full | Comprehensive RNA-Seq Data Analysis Identifies Key mRNAs and lncRNAs in Atrial Fibrillation |
| title_fullStr | Comprehensive RNA-Seq Data Analysis Identifies Key mRNAs and lncRNAs in Atrial Fibrillation |
| title_full_unstemmed | Comprehensive RNA-Seq Data Analysis Identifies Key mRNAs and lncRNAs in Atrial Fibrillation |
| title_short | Comprehensive RNA-Seq Data Analysis Identifies Key mRNAs and lncRNAs in Atrial Fibrillation |
| title_sort | comprehensive rna seq data analysis identifies key mrnas and lncrnas in atrial fibrillation |
| topic | long non-coding RNAs atrial fibrillation RNA-Seq genes protein coding genes |
| url | https://www.frontiersin.org/article/10.3389/fgene.2019.00908/full |
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