Exploring functions of long noncoding RNAs across multiple cancers through co-expression network

Abstract In contrast to protein-coding genes, long-noncoding RNAs (lncRNAs) are much less well understood, despite increasing evidence indicating a wide range of their biological functions, and possible roles in various cancers. Based on public RNA-seq datasets of four solid cancer types, we here ut...

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Autores principales:	Suqing Li, Bin Li, Yuanting Zheng, Menglong Li, Leming Shi, Xuemei Pu
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/4644024991cf4b8fb3f952a8bbe8cf9a
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spelling	oai:doaj.org-article:4644024991cf4b8fb3f952a8bbe8cf9a2021-12-02T16:06:25ZExploring functions of long noncoding RNAs across multiple cancers through co-expression network10.1038/s41598-017-00856-82045-2322https://doaj.org/article/4644024991cf4b8fb3f952a8bbe8cf9a2017-04-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-00856-8https://doaj.org/toc/2045-2322Abstract In contrast to protein-coding genes, long-noncoding RNAs (lncRNAs) are much less well understood, despite increasing evidence indicating a wide range of their biological functions, and possible roles in various cancers. Based on public RNA-seq datasets of four solid cancer types, we here utilize Weighted Correlation Network Analysis (WGCNA) to propose a strategy for exploring the functions of lncRNAs altered in more than two cancer types, which we call onco-lncRNAs. Results indicate that cancer-expressed lncRNAs show high tissue specificity and are weakly expressed, more so than protein-coding genes. Most of the 236 onco-lncRNAs we identified have not been reported to have associations with cancers before. Our analysis exploits co-expression network to reveal that onco-lncRNAs likely play key roles in the multistep development of human cancers, covering a wide range of functions in genome stability maintenance, signaling, cell adhesion and motility, morphogenesis, cell cycle, immune and inflammatory response. These observations contribute to a more comprehensive understanding of cancer-associated lncRNAs, while demonstrating a novel and efficient strategy for subsequent functional studies of lncRNAs.Suqing LiBin LiYuanting ZhengMenglong LiLeming ShiXuemei PuNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-13 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Suqing Li Bin Li Yuanting Zheng Menglong Li Leming Shi Xuemei Pu Exploring functions of long noncoding RNAs across multiple cancers through co-expression network
description	Abstract In contrast to protein-coding genes, long-noncoding RNAs (lncRNAs) are much less well understood, despite increasing evidence indicating a wide range of their biological functions, and possible roles in various cancers. Based on public RNA-seq datasets of four solid cancer types, we here utilize Weighted Correlation Network Analysis (WGCNA) to propose a strategy for exploring the functions of lncRNAs altered in more than two cancer types, which we call onco-lncRNAs. Results indicate that cancer-expressed lncRNAs show high tissue specificity and are weakly expressed, more so than protein-coding genes. Most of the 236 onco-lncRNAs we identified have not been reported to have associations with cancers before. Our analysis exploits co-expression network to reveal that onco-lncRNAs likely play key roles in the multistep development of human cancers, covering a wide range of functions in genome stability maintenance, signaling, cell adhesion and motility, morphogenesis, cell cycle, immune and inflammatory response. These observations contribute to a more comprehensive understanding of cancer-associated lncRNAs, while demonstrating a novel and efficient strategy for subsequent functional studies of lncRNAs.
format	article
author	Suqing Li Bin Li Yuanting Zheng Menglong Li Leming Shi Xuemei Pu
author_facet	Suqing Li Bin Li Yuanting Zheng Menglong Li Leming Shi Xuemei Pu
author_sort	Suqing Li
title	Exploring functions of long noncoding RNAs across multiple cancers through co-expression network
title_short	Exploring functions of long noncoding RNAs across multiple cancers through co-expression network
title_full	Exploring functions of long noncoding RNAs across multiple cancers through co-expression network
title_fullStr	Exploring functions of long noncoding RNAs across multiple cancers through co-expression network
title_full_unstemmed	Exploring functions of long noncoding RNAs across multiple cancers through co-expression network
title_sort	exploring functions of long noncoding rnas across multiple cancers through co-expression network
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/4644024991cf4b8fb3f952a8bbe8cf9a
work_keys_str_mv	AT suqingli exploringfunctionsoflongnoncodingrnasacrossmultiplecancersthroughcoexpressionnetwork AT binli exploringfunctionsoflongnoncodingrnasacrossmultiplecancersthroughcoexpressionnetwork AT yuantingzheng exploringfunctionsoflongnoncodingrnasacrossmultiplecancersthroughcoexpressionnetwork AT menglongli exploringfunctionsoflongnoncodingrnasacrossmultiplecancersthroughcoexpressionnetwork AT lemingshi exploringfunctionsoflongnoncodingrnasacrossmultiplecancersthroughcoexpressionnetwork AT xuemeipu exploringfunctionsoflongnoncodingrnasacrossmultiplecancersthroughcoexpressionnetwork
_version_	1718385019607580672

Exploring functions of long noncoding RNAs across multiple cancers through co-expression network

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