Original Research ARTICLE
Analysis of aberrantly expressed profiles of lncRNA-mediated ceRNA crosstalk and identifcation of prognostic signature and in head and neck squamous cell carcinoma
- 1Department of Laboratory Medicine, Zhongnan Hospital of Wuhan University, China
- 2Zhongnan Hospital, Wuhan University, China
- 3Department of Pathology, Houjie Hospital of Dongguan, China
Long non-coding RNA (lncRNA) can act as ceRNA to regulate the expression of target genes by sponging miRNAs, and therefore plays an essential role in tumor initiation and progression. However, functional roles and regulatory mechanisms of lncRNAs as ceRNAs in head and neck squamous cell carcinoma (HNSCC) remains to be determined. In the current study, we explored a genome-wide analysis to confirm potential lncRNA-associated ceRNA network. The mRNAs, lncRNAs and miRNAs sequence profiles were downloaded from availably accessed The Cancer Genome Atlas (TCGA) database. Differential expressed (DE) RNAs was analyzed using the ‘edgeR’ package in R. Kaplan-Meier curve analysis was used to confirm the survival based on ‘survival’ package in R. Gene Ontology (GO) enrichment and KEGG pathway of targeted genes were analysed through DAVID and KOBAS software, respectively. A total number of 1081 DElncRNAs, 1889 DEmRNAs and 196 DEmiRNAs were identified. The analysis of the ceRNA network identified 61 DElncRNAs as functional ceRNAs whose dysregulated expression will lead to variation in tumorigenic or tumor-suppressive gene expression at the post-transcriptional level contributing to HNSCC. Furthermore, univariate and multivariate Cox regression analysis revealed that 10 DElncRNAs, 5 EDmiRNAs and 9 DEmRNAs can predict survival with high accuracy. In conclusion, through constructing the ceRNA network in HNSCC patients, we shall further improve the understanding of ceRNA network regulatory mechanisms and identify several new lncRNAs and miRNAs for acting as candidate prognostic biomarkers and potential therapeutic targets.
Keywords: Head and neck squamous cell carcinoma, ceRNA network, long non-coding RNAs, microRNA, TCGA
Received: 10 Jul 2018;
Accepted: 08 Feb 2019.
Edited by:Francois X. Claret, University of Texas MD Anderson Cancer Center, United States
Reviewed by:Valerio Costa, Italian National Research Council (CNR), Italy
Dingbo Shi, Sun Yat-sen University, China
Copyright: © 2019 Pan, Liu, Wang and Li. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
Dr. Guohong Liu, Zhongnan Hospital, Wuhan University, Wuhan, 430071, Hubei Province, China, email@example.com
Dr. Yirong Li, Department of Laboratory Medicine, Zhongnan Hospital of Wuhan University, Wuhan, China, firstname.lastname@example.org