Integrated Analysis of Long Noncoding RNA and mRNA Expression Profile in Advanced Laryngeal Squamous Cell Carcinoma

Abstract

Long non-coding RNA (lncRNA) plays an important role in tumorigenesis. However, the expression pattern and function of lncRNAs in laryngeal squamous cell carcinoma (LSCC) are still unclear. To investigate the aberrantly expressed lncRNAs and mRNAs in advanced LSCC, we screened lncRNA and mRNA expression profiles in 9 pairs of primary Stage IVA LSCC tissues and adjacent non-neoplastic tissues by lncRNA and mRNA integrated microarrays. Gene Ontology and pathway analysis were performed to find out the significant function and pathway of the differentially expressed mRNAs, gene-gene functional interaction network and ceRNA network were constructed to select core mRNAs, and lncRNA-mRNA expression correlation network was built to identify the interactions between lncRNA and mRNA. qRT-PCR was performed to further validate the expressions of selected lncRNAs and mRNAs in advanced LSCC. We found 1459 differentially expressed lncRNAs and 2381 differentially expressed mRNAs, including 846 up-regulated lncRNAs and 613 down-regulated lncRNAs, 1542 up-regulated mRNAs and 839 down-regulated mRNAs. The mRNAs ITGB1, HIF1A, and DDIT4 were selected as core mRNAs, which are mainly involved in biological processes, such as matrix organization, cell cycle, adhesion, and metabolic pathway. LncRNA-mRNA expression correlation network showed LncRNA NR_027340, MIR31HG were positively correlated with ITGB1, HIF1A respectively. LncRNA SOX2-OT was negatively correlated with DDIT4. qRT-PCR further validated the expression of these lncRNAs and mRNAs. The work provides convincing evidence that the identified lncRNAs and mRNAs are potential biomarkers in advanced LSCC for further future studies.

LncRNA SOX2‐OT is a novel prognostic biomarker for osteosarcoma patients and regulates osteosarcoma cells proliferation and motility through modulating SOX2

“…LncRNA SOX2‐OT is located atChr3q26.3 locus and is extended in a highly conserved region of over 700kb . Recently, lncRNA SOX2‐OT has been shown to be highly expressed in human cancers, such as lung cancer , hepatocellular carcinoma , gastric cancer , and laryngeal squamous cell carcinoma . Similarly, our study showed lncRNA SOX2‐OT expression was significantly increased in osteosarcoma tissues and cell lines.…”

“…Similar results in gastric cancer reported by Zou et al and Zhang et al , lncRNA SOX2‐OT was overexpressed in gastric cancer tissues and cell lines, and lncRNA SOX2‐OT overexpression was correlated with clinical stage, tumor depth, lymph node metastasis, and distant metastasis in gastric cancer patients. In addition, Feng et al conducted microarray in nine pairs of primary laryngeal squamous cell carcinoma tissues and adjacent normal tissues and found lncRNA SOX2‐OT was one of upregulated lncRNAs in laryngeal squamous cell carcinoma tissues. Above results consistently suggested that lncRNA SOX2‐OT may play an unfavorable role in osteosarcoma development and progress.…”

LncRNA SOX2‐OT regulates proliferation and metastasis of nasopharyngeal carcinoma cells through miR‐146b‐5p/HNRNPA2B1 pathway

“…24 SOX2-OT has been reported to be upregulated in laryngeal squamous cell carcinoma and regulate osteosarcoma cells proliferation and motility through modulating SOX2. 9,25 Nevertheless, the biological significance and regulatory mechanism of SOX2-OT in NPC progression are largely to be clarified. In the present study, we found the expression level of SOX2-OT was higher in NPC tissues than that in the matched nonneoplastic tissues.…”

LncRNA MEG3 inhibits cell proliferation and induces apoptosis in laryngeal cancer via miR‐23a/APAF‐1 axis

“…Growing evidence has demonstrated that some tumour suppressor genes, such as CDKN2A, TP53 and CTNNA2, are down‐regulated or inactivated in laryngeal cancer tissues and contributed to the tumorigenesis of laryngeal cancer . Recent studies have found that long non‐coding RNAs (LncRNAs), a member of non‐coding RNA gene family, are dysregulated in laryngeal cancer tissues . More interestingly, several LncRNAs, such as HOTAIR, NEAT1 and H19, function as oncogenes to promote the tumorigenesis of laryngeal cancer.…”

“…gene family, are dysregulated in laryngeal cancer tissues. 6,7 More interestingly, several LncRNAs, such as HOTAIR, 8 NEAT1 9 and H19, 10 function as oncogenes to promote the tumorigenesis of laryngeal cancer. Therefore, identifying the role of LncRNAs in laryngeal cancer may bring a novel insight into the occurrence and development of laryngeal cancer.…”