Identification of a novel prognosis-associated ceRNA network in lung adenocarcinoma via bioinformatics analysis

Abstract Background Lung adenocarcinoma (LUAD) is the most common subtype of nonsmall-cell lung cancer (NSCLC) and has a high incidence rate and mortality. The survival of LUAD patients has increased with the development of targeted therapeutics, but the prognosis of these patients is still poor. Lo...

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Autores principales:	Yumiao Li, Xiaoxue Yu, Yuhao Zhang, Xiaofang Wang, Linshan Zhao, Dan Liu, Guofa Zhao, Xiangpeng Gao, Jiejun Fu, Aimin Zang, Youchao Jia
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	Lung adenocarcinoma LncRNAs CeRNA Biomarker Prognosis Medical technology R855-855.5
Acceso en línea:	https://doaj.org/article/241db3500fd5423eaa4a189327852404
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spelling	oai:doaj.org-article:241db3500fd5423eaa4a1893278524042021-11-28T12:13:22ZIdentification of a novel prognosis-associated ceRNA network in lung adenocarcinoma via bioinformatics analysis10.1186/s12938-021-00952-x1475-925Xhttps://doaj.org/article/241db3500fd5423eaa4a1893278524042021-11-01T00:00:00Zhttps://doi.org/10.1186/s12938-021-00952-xhttps://doaj.org/toc/1475-925XAbstract Background Lung adenocarcinoma (LUAD) is the most common subtype of nonsmall-cell lung cancer (NSCLC) and has a high incidence rate and mortality. The survival of LUAD patients has increased with the development of targeted therapeutics, but the prognosis of these patients is still poor. Long noncoding RNAs (lncRNAs) play an important role in the occurrence and development of LUAD. The purpose of this study was to identify novel abnormally regulated lncRNA–microRNA (miRNA)–messenger RNA (mRNA) competing endogenous RNA (ceRNA) networks that may suggest new therapeutic targets for LUAD or relate to LUAD prognosis. Methods We used the SBC human ceRNA array V1.0 to screen for differentially expressed (DE) lncRNAs and mRNAs in four paired LUAD samples. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses were performed to annotate the DE lncRNAs and mRNAs. R bioinformatics packages, The Cancer Genome Atlas (TCGA) LUAD database, and Kaplan–Meier (KM) survival analysis tools were used to validate the microarray data and construct the lncRNA–miRNA–mRNA ceRNA regulatory network. Then, quantitative real-time PCR (qRT-PCR) was used to validate the DE lncRNAs in 7 LUAD cell lines. Results A total of 2819 DE lncRNAs and 2396 DE mRNAs (P < 0.05 and fold change ≥ 2 or ≤ 0.5) were identified in four paired LUAD tissue samples. In total, 255 of the DE lncRNAs were also identified in TCGA. The GO and KEGG analysis results suggested that the DE genes were most enriched in angiogenesis and cell proliferation, and were closely related to human cancers. Moreover, the differential expression of ENST00000609697, ENST00000602992, and NR_024321 was consistent with the microarray data, as determined by qRT-PCR validation in 7 LUAD cell lines; however, only ENST00000609697 was associated with the overall survival of LUAD patients (log-rank P = 0.029). Finally, through analysis of ENST00000609697 target genes, we identified the ENST00000609697–hsa-miR-6791-5p–RASL12 ceRNA network, which may play a tumor-suppressive role in LUAD. Conclusion ENST00000609697 was abnormally expressed in LUAD. Furthermore, downregulation of ENST00000609697 and its target gene RASL12 was associated with poor prognosis in LUAD. The ENST00000609697–hsa-miR-6791-5p–RASL12 axis may play a tumor-suppressive role. These results suggest new potential prognostic and therapeutic biomarkers for LUAD.Yumiao LiXiaoxue YuYuhao ZhangXiaofang WangLinshan ZhaoDan LiuGuofa ZhaoXiangpeng GaoJiejun FuAimin ZangYouchao JiaBMCarticleLung adenocarcinomaLncRNAsCeRNABiomarkerPrognosisMedical technologyR855-855.5ENBioMedical Engineering OnLine, Vol 20, Iss 1, Pp 1-19 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Lung adenocarcinoma LncRNAs CeRNA Biomarker Prognosis Medical technology R855-855.5
spellingShingle	Lung adenocarcinoma LncRNAs CeRNA Biomarker Prognosis Medical technology R855-855.5 Yumiao Li Xiaoxue Yu Yuhao Zhang Xiaofang Wang Linshan Zhao Dan Liu Guofa Zhao Xiangpeng Gao Jiejun Fu Aimin Zang Youchao Jia Identification of a novel prognosis-associated ceRNA network in lung adenocarcinoma via bioinformatics analysis
description	Abstract Background Lung adenocarcinoma (LUAD) is the most common subtype of nonsmall-cell lung cancer (NSCLC) and has a high incidence rate and mortality. The survival of LUAD patients has increased with the development of targeted therapeutics, but the prognosis of these patients is still poor. Long noncoding RNAs (lncRNAs) play an important role in the occurrence and development of LUAD. The purpose of this study was to identify novel abnormally regulated lncRNA–microRNA (miRNA)–messenger RNA (mRNA) competing endogenous RNA (ceRNA) networks that may suggest new therapeutic targets for LUAD or relate to LUAD prognosis. Methods We used the SBC human ceRNA array V1.0 to screen for differentially expressed (DE) lncRNAs and mRNAs in four paired LUAD samples. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses were performed to annotate the DE lncRNAs and mRNAs. R bioinformatics packages, The Cancer Genome Atlas (TCGA) LUAD database, and Kaplan–Meier (KM) survival analysis tools were used to validate the microarray data and construct the lncRNA–miRNA–mRNA ceRNA regulatory network. Then, quantitative real-time PCR (qRT-PCR) was used to validate the DE lncRNAs in 7 LUAD cell lines. Results A total of 2819 DE lncRNAs and 2396 DE mRNAs (P < 0.05 and fold change ≥ 2 or ≤ 0.5) were identified in four paired LUAD tissue samples. In total, 255 of the DE lncRNAs were also identified in TCGA. The GO and KEGG analysis results suggested that the DE genes were most enriched in angiogenesis and cell proliferation, and were closely related to human cancers. Moreover, the differential expression of ENST00000609697, ENST00000602992, and NR_024321 was consistent with the microarray data, as determined by qRT-PCR validation in 7 LUAD cell lines; however, only ENST00000609697 was associated with the overall survival of LUAD patients (log-rank P = 0.029). Finally, through analysis of ENST00000609697 target genes, we identified the ENST00000609697–hsa-miR-6791-5p–RASL12 ceRNA network, which may play a tumor-suppressive role in LUAD. Conclusion ENST00000609697 was abnormally expressed in LUAD. Furthermore, downregulation of ENST00000609697 and its target gene RASL12 was associated with poor prognosis in LUAD. The ENST00000609697–hsa-miR-6791-5p–RASL12 axis may play a tumor-suppressive role. These results suggest new potential prognostic and therapeutic biomarkers for LUAD.
format	article
author	Yumiao Li Xiaoxue Yu Yuhao Zhang Xiaofang Wang Linshan Zhao Dan Liu Guofa Zhao Xiangpeng Gao Jiejun Fu Aimin Zang Youchao Jia
author_facet	Yumiao Li Xiaoxue Yu Yuhao Zhang Xiaofang Wang Linshan Zhao Dan Liu Guofa Zhao Xiangpeng Gao Jiejun Fu Aimin Zang Youchao Jia
author_sort	Yumiao Li
title	Identification of a novel prognosis-associated ceRNA network in lung adenocarcinoma via bioinformatics analysis
title_short	Identification of a novel prognosis-associated ceRNA network in lung adenocarcinoma via bioinformatics analysis
title_full	Identification of a novel prognosis-associated ceRNA network in lung adenocarcinoma via bioinformatics analysis
title_fullStr	Identification of a novel prognosis-associated ceRNA network in lung adenocarcinoma via bioinformatics analysis
title_full_unstemmed	Identification of a novel prognosis-associated ceRNA network in lung adenocarcinoma via bioinformatics analysis
title_sort	identification of a novel prognosis-associated cerna network in lung adenocarcinoma via bioinformatics analysis
publisher	BMC
publishDate	2021
url	https://doaj.org/article/241db3500fd5423eaa4a189327852404
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Identification of a novel prognosis-associated ceRNA network in lung adenocarcinoma via bioinformatics analysis

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