Comprehensive Profiling of lincRNAs in Lung Adenocarcinoma of Never Smokers Reveals Their Roles in Cancer Development and Prognosis

Long intergenic non-coding RNA (lincRNA) is a family of gene transcripts, the functions of which are largely unknown. Although cigarette smoking is the main cause for lung cancer, lung cancer in non-smokers is a separate entity and its underlying cause is little known. Growing evidence suggests linc...

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Main Authors: Ying Li, Zheng Wang, Asha Nair, Wei Song, Ping Yang, Xiaoju Zhang, Zhifu Sun
Format: Article
Language:English
Published: MDPI AG 2017-11-01
Series:Genes
Subjects:
Online Access:https://www.mdpi.com/2073-4425/8/11/321
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spelling doaj-75211945e953404db1a48283f23de5022020-11-24T21:15:23ZengMDPI AGGenes2073-44252017-11-0181132110.3390/genes8110321genes8110321Comprehensive Profiling of lincRNAs in Lung Adenocarcinoma of Never Smokers Reveals Their Roles in Cancer Development and PrognosisYing Li0Zheng Wang1Asha Nair2Wei Song3Ping Yang4Xiaoju Zhang5Zhifu Sun6Department of Health Sciences Research, Mayo Clinic, Rochester, MN 55905, USADepartment of Pulmonary Medicine, People’s Hospital of Henan Province, Zhengzhou 450003, ChinaDepartment of Health Sciences Research, Mayo Clinic, Rochester, MN 55905, USADepartment of Pulmonary Medicine, People’s Hospital of Henan Province, Zhengzhou 450003, ChinaDepartment of Health Sciences Research, Mayo Clinic, Rochester, MN 55905, USADepartment of Pulmonary Medicine, People’s Hospital of Henan Province, Zhengzhou 450003, ChinaDepartment of Health Sciences Research, Mayo Clinic, Rochester, MN 55905, USALong intergenic non-coding RNA (lincRNA) is a family of gene transcripts, the functions of which are largely unknown. Although cigarette smoking is the main cause for lung cancer, lung cancer in non-smokers is a separate entity and its underlying cause is little known. Growing evidence suggests lincRNAs play a significant role in cancer development and progression; however, such data is lacking for lung cancer in non-smokers, or those who have never smoked. This study conducted comprehensive profiling of lincRNAs from RNA sequencing (RNA-seq) data of non-smoker patients with lung adenocarcinoma. Both known and novel lincRNAs distinctly segregated tumors from normal tissues. Approximately one third of lincRNAs were differentially expressed between tumors and normal samples and most of them were coordinated with their putative protein gene targets. More importantly, lincRNAs defined two clusters of tumors that were associated with tumor aggressiveness and patient survival. We identified a subset of lincRNAs that were differentially expressed and also associated with patient survival. Very high concordance (R2 = 0.9) was observed for the differentially expressed lincRNAs in the Cancer Genome Atlas (TCGA) validation set of 85 transcriptomes and the lincRNAs associated with survival from the discovery set were similarly predictive in the validation set. These lincRNAs warrant further investigation as potential diagnostic and prognostic markers.https://www.mdpi.com/2073-4425/8/11/321long intergenic non-coding RNAnever smokerslung adenocarcinomaRNA-sequencing
collection DOAJ
language English
format Article
sources DOAJ
author Ying Li
Zheng Wang
Asha Nair
Wei Song
Ping Yang
Xiaoju Zhang
Zhifu Sun
spellingShingle Ying Li
Zheng Wang
Asha Nair
Wei Song
Ping Yang
Xiaoju Zhang
Zhifu Sun
Comprehensive Profiling of lincRNAs in Lung Adenocarcinoma of Never Smokers Reveals Their Roles in Cancer Development and Prognosis
Genes
long intergenic non-coding RNA
never smokers
lung adenocarcinoma
RNA-sequencing
author_facet Ying Li
Zheng Wang
Asha Nair
Wei Song
Ping Yang
Xiaoju Zhang
Zhifu Sun
author_sort Ying Li
title Comprehensive Profiling of lincRNAs in Lung Adenocarcinoma of Never Smokers Reveals Their Roles in Cancer Development and Prognosis
title_short Comprehensive Profiling of lincRNAs in Lung Adenocarcinoma of Never Smokers Reveals Their Roles in Cancer Development and Prognosis
title_full Comprehensive Profiling of lincRNAs in Lung Adenocarcinoma of Never Smokers Reveals Their Roles in Cancer Development and Prognosis
title_fullStr Comprehensive Profiling of lincRNAs in Lung Adenocarcinoma of Never Smokers Reveals Their Roles in Cancer Development and Prognosis
title_full_unstemmed Comprehensive Profiling of lincRNAs in Lung Adenocarcinoma of Never Smokers Reveals Their Roles in Cancer Development and Prognosis
title_sort comprehensive profiling of lincrnas in lung adenocarcinoma of never smokers reveals their roles in cancer development and prognosis
publisher MDPI AG
series Genes
issn 2073-4425
publishDate 2017-11-01
description Long intergenic non-coding RNA (lincRNA) is a family of gene transcripts, the functions of which are largely unknown. Although cigarette smoking is the main cause for lung cancer, lung cancer in non-smokers is a separate entity and its underlying cause is little known. Growing evidence suggests lincRNAs play a significant role in cancer development and progression; however, such data is lacking for lung cancer in non-smokers, or those who have never smoked. This study conducted comprehensive profiling of lincRNAs from RNA sequencing (RNA-seq) data of non-smoker patients with lung adenocarcinoma. Both known and novel lincRNAs distinctly segregated tumors from normal tissues. Approximately one third of lincRNAs were differentially expressed between tumors and normal samples and most of them were coordinated with their putative protein gene targets. More importantly, lincRNAs defined two clusters of tumors that were associated with tumor aggressiveness and patient survival. We identified a subset of lincRNAs that were differentially expressed and also associated with patient survival. Very high concordance (R2 = 0.9) was observed for the differentially expressed lincRNAs in the Cancer Genome Atlas (TCGA) validation set of 85 transcriptomes and the lincRNAs associated with survival from the discovery set were similarly predictive in the validation set. These lincRNAs warrant further investigation as potential diagnostic and prognostic markers.
topic long intergenic non-coding RNA
never smokers
lung adenocarcinoma
RNA-sequencing
url https://www.mdpi.com/2073-4425/8/11/321
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