Construction and characterization of rectal cancer‐related lncRNA‐mRNA ceRNA network reveals prognostic biomarkers in rectal cancer

Abstract Rectal cancer is an important cause of cancer‐related deaths worldwide. In this study, the differentially expressed (DE) lncRNAs/mRNAs were first identified and the correlation level between DE lncRNAs and mRNAs were calculated. The results showed that genes of highly correlated lncRNA‐mRNA...

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Autores principales:	Guoying Cai, Meifei Sun, Xinrong Li, Junquan Zhu
Formato:	article
Lenguaje:	EN
Publicado:	Wiley 2021
Materias:	lncRNA network prognosis biomarkers rectal cancer transcription factor Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/1dce942ae2384738996eb4230aaa011f
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spelling	oai:doaj.org-article:1dce942ae2384738996eb4230aaa011f2021-11-05T12:10:49ZConstruction and characterization of rectal cancer‐related lncRNA‐mRNA ceRNA network reveals prognostic biomarkers in rectal cancer1751-88571751-884910.1049/syb2.12035https://doaj.org/article/1dce942ae2384738996eb4230aaa011f2021-12-01T00:00:00Zhttps://doi.org/10.1049/syb2.12035https://doaj.org/toc/1751-8849https://doaj.org/toc/1751-8857Abstract Rectal cancer is an important cause of cancer‐related deaths worldwide. In this study, the differentially expressed (DE) lncRNAs/mRNAs were first identified and the correlation level between DE lncRNAs and mRNAs were calculated. The results showed that genes of highly correlated lncRNA‐mRNA pairs presented strong prognosis effects, such as GPM6A, METTL24, SCN7A, HAND2‐AS1 and PDZRN4. Then, the rectal cancer‐related lncRNA‐mRNA network was constructed based on the ceRNA theory. Topological analysis of the network revealed that the network was maintained by hub nodes and a hub subnetwork was constructed, including the hub lncRNA MIR143HG and MBNL1‐SA1. Further analysis indicated that the hub subnetwork was highly related to cancer pathways, such as ‘Focal adhesion’ and ‘Wnt signalling pathway’. Hub subnetwork also had significant prognosis capability. A closed lncRNA‐mRNA module was identified by bilateral network clustering. Genes in modules also showed high prognosis effects. Finally, a core lncRNA‐TF crosstalk network was identified to uncover the crosstalk and regulatory mechanisms of lncRNAs and TFs by integrating ceRNA crosstalks and TF binding affinities. Some core genes, such as MEIS1, GLI3 and HAND2‐AS1 were considered as the key regulators in tumourigenesis. Based on the authors’ comprehensive analysis, all these lncRNA‐mRNA crosstalks provided promising clues for biological prognosis of rectal cancer.Guoying CaiMeifei SunXinrong LiJunquan ZhuWileyarticlelncRNAnetworkprognosis biomarkersrectal cancertranscription factorBiology (General)QH301-705.5ENIET Systems Biology, Vol 15, Iss 6, Pp 192-204 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	lncRNA network prognosis biomarkers rectal cancer transcription factor Biology (General) QH301-705.5
spellingShingle	lncRNA network prognosis biomarkers rectal cancer transcription factor Biology (General) QH301-705.5 Guoying Cai Meifei Sun Xinrong Li Junquan Zhu Construction and characterization of rectal cancer‐related lncRNA‐mRNA ceRNA network reveals prognostic biomarkers in rectal cancer
description	Abstract Rectal cancer is an important cause of cancer‐related deaths worldwide. In this study, the differentially expressed (DE) lncRNAs/mRNAs were first identified and the correlation level between DE lncRNAs and mRNAs were calculated. The results showed that genes of highly correlated lncRNA‐mRNA pairs presented strong prognosis effects, such as GPM6A, METTL24, SCN7A, HAND2‐AS1 and PDZRN4. Then, the rectal cancer‐related lncRNA‐mRNA network was constructed based on the ceRNA theory. Topological analysis of the network revealed that the network was maintained by hub nodes and a hub subnetwork was constructed, including the hub lncRNA MIR143HG and MBNL1‐SA1. Further analysis indicated that the hub subnetwork was highly related to cancer pathways, such as ‘Focal adhesion’ and ‘Wnt signalling pathway’. Hub subnetwork also had significant prognosis capability. A closed lncRNA‐mRNA module was identified by bilateral network clustering. Genes in modules also showed high prognosis effects. Finally, a core lncRNA‐TF crosstalk network was identified to uncover the crosstalk and regulatory mechanisms of lncRNAs and TFs by integrating ceRNA crosstalks and TF binding affinities. Some core genes, such as MEIS1, GLI3 and HAND2‐AS1 were considered as the key regulators in tumourigenesis. Based on the authors’ comprehensive analysis, all these lncRNA‐mRNA crosstalks provided promising clues for biological prognosis of rectal cancer.
format	article
author	Guoying Cai Meifei Sun Xinrong Li Junquan Zhu
author_facet	Guoying Cai Meifei Sun Xinrong Li Junquan Zhu
author_sort	Guoying Cai
title	Construction and characterization of rectal cancer‐related lncRNA‐mRNA ceRNA network reveals prognostic biomarkers in rectal cancer
title_short	Construction and characterization of rectal cancer‐related lncRNA‐mRNA ceRNA network reveals prognostic biomarkers in rectal cancer
title_full	Construction and characterization of rectal cancer‐related lncRNA‐mRNA ceRNA network reveals prognostic biomarkers in rectal cancer
title_fullStr	Construction and characterization of rectal cancer‐related lncRNA‐mRNA ceRNA network reveals prognostic biomarkers in rectal cancer
title_full_unstemmed	Construction and characterization of rectal cancer‐related lncRNA‐mRNA ceRNA network reveals prognostic biomarkers in rectal cancer
title_sort	construction and characterization of rectal cancer‐related lncrna‐mrna cerna network reveals prognostic biomarkers in rectal cancer
publisher	Wiley
publishDate	2021
url	https://doaj.org/article/1dce942ae2384738996eb4230aaa011f
work_keys_str_mv	AT guoyingcai constructionandcharacterizationofrectalcancerrelatedlncrnamrnacernanetworkrevealsprognosticbiomarkersinrectalcancer AT meifeisun constructionandcharacterizationofrectalcancerrelatedlncrnamrnacernanetworkrevealsprognosticbiomarkersinrectalcancer AT xinrongli constructionandcharacterizationofrectalcancerrelatedlncrnamrnacernanetworkrevealsprognosticbiomarkersinrectalcancer AT junquanzhu constructionandcharacterizationofrectalcancerrelatedlncrnamrnacernanetworkrevealsprognosticbiomarkersinrectalcancer
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Construction and characterization of rectal cancer‐related lncRNA‐mRNA ceRNA network reveals prognostic biomarkers in rectal cancer

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