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Mol Oncol. 2019 Sep 10. doi: 10.1002/1878-0261.12571. [Epub ahead of print]

Identification of microRNAs involved in pathways which characterize the expression subtypes of NSCLC.

Author information

1
Department of Cancer Genetics, Institute for Cancer Research, OUS Radiumhospitalet, Oslo, Norway.
2
Institute for Clinical Medicine, University of Oslo, Norway.
3
Department of Cardiothoracic Surgery, Oslo University Hospital-Rikshospitalet, Oslo, Norway.

Abstract

Dysregulation of microRNAs is a common mechanism in the development of lung cancer, but the relationship between microRNAs and expression subtypes in non-small cell lung cancer (NSCLC) is poorly explored. Here, we analyzed microRNA expression from 241 NSCLC samples and correlated this with the expression subtypes of adenocarcinomas (AD) and squamous cell carcinomas (SCC) to identify microRNAs specific for each subtype. Geneset variation analysis and the Hallmark geneset were utilized to calculate geneset scores specific for each sample, and these were further correlated with the expression of the subtype-specific microRNAs. In ADs, we identified 9 aberrantly regulated microRNAs in the terminal respiratory unit- (TRU), 3 in the proximal inflammatory- (PI) and 9 in the proximal proliferative subtype (PP). In SCCs, 1, 5, 5 and 9 microRNAs were significantly dysregulated in the basal, primitive, classical and secretory subtypes, respectively. The subtype-specific microRNAs were highly correlated to specific gene sets, and a distinct pattern of biological processes with high immune activity for the AD PI and SCC secretory subtypes, and upregulation of cell-cycle related processes in AD PP, SCC primitive and SCC classical subtypes were found. Several in silico predicted targets within the genesets were identified for the subtype-specific microRNAs, underpinning the findings. The results were significantly validated in the LUAD (n=492) and LUSC (n=380) TCGA dataset (FDR corrected p-value < 0.05). Our study provides novel insight into how expression subtypes determined with discrete biological processes may be regulated by subtype-specific microRNAs. These results may have importance for the development of combinatory therapeutic strategies for lung cancer patients.

KEYWORDS:

adenocarcinoma; expression subtypes; microRNA; non-small cell lung cancer; pathway; predicted target; squamous cell carcinoma

PMID:
31505091
DOI:
10.1002/1878-0261.12571
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