PMID- 32174248 OWN - NLM STAT- MEDLINE DCOM- 20210512 LR - 20210512 IS - 1555-8584 (Electronic) IS - 1547-6286 (Print) IS - 1547-6286 (Linking) VI - 17 IP - 7 DP - 2020 Jul TI - Using RNA sequencing to identify a putative lncRNA-associated ceRNA network in laryngeal squamous cell carcinoma. PG - 977-989 LID - 10.1080/15476286.2020.1741282 [doi] AB - Accumulating evidence indicates that lncRNAs can interact with miRNAs to regulate target mRNAs through competitive interactions. However, this mechanism remains largely unexplored in laryngeal squamous cell carcinoma (LSCC). In this study, transcriptome-wide RNA sequencing was performed on 3 pairs of LSCC tissues and adjacent normal tissues to investigate the expression profiles of lncRNAs, miRNAs and mRNAs, with differential expression of 171 lncRNAs, 36 miRNAs and 1709 mRNAs detected. Seven lncRNAs, eight mRNAs and three miRNAs were identified to be dysregulated in patients' tissues by using qRT-PCR. GO and KEGG pathway enrichment analyses were performed to elucidate the potential functions of these differentially expressed genes in LSCC. Subsequently, a ceRNA (lncRNA-miRNA-mRNA) network including 4631 ceRNA pairs was constructed based on predicted miRNAs shared by lncRNAs and mRNAs. Cis- and transregulatory lncRNAs were analysed by bioinformatics-based methods. Importantly, mRNA-related ceRNA networks (mRCNs) were further obtained based on potential cancer-related coding genes. Coexpression between lncRNAs and downstream mRNAs was used as a criterion for the validation of mRCNs, with the ZNF561-AS1-miR217-WNT5A and SATB1-AS1-miR1299-SAV1/CCNG2/SH3 KBP1/JADE1/HIPK2 ceRNA regulatory interactions determined, followed by experimental validation after siRNA transfection. Moreover, ceRNA activity analysis revealed that different activities of ceRNA modules existing in specific pathological environments may contribute to the tumorigenesis of LSCC. Consistently, both downregulated SATB1-AS1 and ZNF561-AS1 significantly promoted laryngeal cancer cell migration and invasion, indicating their important roles in LSCC via a ceRNA regulatory mechanism. Taken together, the results of this investigation uncovered and systemically characterized a lncRNA-related ceRNA regulatory network that may be valuable for the diagnosis and treatment of LSCC. FAU - Lyu, Kexing AU - Lyu K AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Li, Yun AU - Li Y AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Xu, Yang AU - Xu Y AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Yue, Huijun AU - Yue H AUID- ORCID: 0000-0001-8826-9423 AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Wen, Yihui AU - Wen Y AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Liu, Tesi AU - Liu T AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Chen, Siyu AU - Chen S AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Liu, Qihong AU - Liu Q AUID- ORCID: 0000-0001-6003-9116 AD - Department of Otolaryngology, The Eighth Affiliated Hospital, Sun Yat-sen University , Shenzhen, Guangdong, P.R. China. FAU - Yang, Weiqiang AU - Yang W AUID- ORCID: 0000-0002-2511-7948 AD - Department of Otolaryngology, Peking University Shenzhen Hospital , Shenzhen, Guangdong, P.R. China. FAU - Zhu, Xiaolin AU - Zhu X AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Wang, Zhangfeng AU - Wang Z AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Chai, Liping AU - Chai L AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Wen, Weiping AU - Wen W AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Li, Chunwei AU - Li C AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. FAU - Lei, Wenbin AU - Lei W AD - Otorhinolaryngology Hospital, The First Affiliated Hospital, Sun Yat-sen University , Guangzhou, Guangdong, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20200330 PL - United States TA - RNA Biol JT - RNA biology JID - 101235328 RN - 0 (Biomarkers, Tumor) RN - 0 (MicroRNAs) RN - 0 (RNA, Long Noncoding) RN - 0 (RNA, Messenger) SB - IM MH - Biomarkers, Tumor MH - Carcinoma, Squamous Cell/*genetics MH - Cell Movement/genetics MH - Computational Biology/methods MH - Gene Expression Profiling/methods MH - *Gene Expression Regulation, Neoplastic MH - *Gene Regulatory Networks MH - Humans MH - Laryngeal Neoplasms/*genetics MH - MicroRNAs/genetics MH - RNA Interference MH - *RNA, Long Noncoding MH - RNA, Messenger/genetics MH - Reproducibility of Results MH - Transcriptome PMC - PMC7549682 OTO - NOTNLM OT - CeRNA OT - RNA sequencing OT - laryngeal carcinoma OT - lncRNA OT - noncoding RNA COIS- The authors declare that there is no conflict of interest associated with this study. EDAT- 2020/03/17 06:00 MHDA- 2021/05/13 06:00 PMCR- 2021/03/30 CRDT- 2020/03/17 06:00 PHST- 2020/03/17 06:00 [pubmed] PHST- 2021/05/13 06:00 [medline] PHST- 2020/03/17 06:00 [entrez] PHST- 2021/03/30 00:00 [pmc-release] AID - 1741282 [pii] AID - 10.1080/15476286.2020.1741282 [doi] PST - ppublish SO - RNA Biol. 2020 Jul;17(7):977-989. doi: 10.1080/15476286.2020.1741282. Epub 2020 Mar 30.