Abstract
Abstract Objective: Oral cavity and oropharyngeal squamous cell carcinoma (OSCC) is a major cancer type in the head and neck region. To better understand the roles long non-coding RNA (lncRNA) play in OSCC carcinogenesis, we compared the genome-wide gene expressions of lncRNA in OSCC and in the oral mucosa from healthy individuals. Materials and methods: We compared the expression levels of 3,054 probe sets for lncRNAs between 167 OSCCs and 45 healthy controls using an Affymetrix HG U133 plus 2.0 array dataset. We validated the top differentially expressed lncRNAs in three independent datasets in the Gene Expression Omnibus (GEO) repository: GSE42743, GSE9844, and GSE6791. We further tested the differential expression of the three lncRNAs showing the highest fold change by quantitative RT-PCR in a subset of 20 OSCCs and 10 control samples. Results: We found 658 lncRNA transcripts (790 probe sets) to be significantly differentially expressed between OSCC and healthy oral mucosa using a criteria of FDR<0.01, with 36 of them (39 probe sets) showing more than a 2-fold change. Among the 36, 14 (15 probe sets) lncRNAs were validated in all three independent datasets using the criteria FDR<0.01: LOC441178, C5orf66-AS1, HCG22, FLG-AS1, CCL14/CCL15-CCL14, LOC100506990, TRIP10, PCBP1-AS1, LINC01315, LINC00478, COX10-AS1/LOC100506974, MLLT4-AS1, MIR31HG, and DUXAP10/LINC01296. The differential expressions of LOC441178, HCG22 and C5orf66-AS1 were verified by qRT-PCR. Conclusion: We identified a number of differentially expressed lncRNAs using transcriptomic data between OSCCs and healthy oral mucosa. Further investigations into their potential role in OSCC carcinogenesis or to serve as OSCC biomarkers and/or therapeutic targets are warranted. Citation Format: Lu Feng, John R. Houck, Pawadee Lohavanichbutr, Chu Chen. Transcriptome analysis reveals differentially expressed lncRNAs between oral squamous cell carcinoma and healthy oral mucosa [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2017; 2017 Apr 1-5; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2017;77(13 Suppl):Abstract nr 3503. doi:10.1158/1538-7445.AM2017-3503
Published Version
Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a call