In silico analysis of biomarker potentials of miRNA-mediated ceRNAs in prostate cancer

Year 2018, Volume: 45 Issue: 4, 415 - 429, 13.12.2018

Sercan Ergün

https://doi.org/10.5798/dicletip.497900

Cited By: 1

Abstract

Objective:
The objective of this study is to define novel biomarkers for Prostate Cancer
(PCa) via in silico analysis that takes PCa-specific miRNAs, finds their
combinatorial target genes (potential ceRNAs), selects ones containing
Transcribed Ultra Conserved Region (T-UCR) among them and potentiates their
relevance with PCa.

Methods:
Thirty-four miRNAs of which clinical relevances with PCa were proved
experimentally were exported via miRWalk database.Using the ComiR database, 859
genes targeted by these 34 miRNAs simultaneously were identified. Genes with
ComiR score above 0.911 were taken into account. Genes containing T-UCR and
showing potential ceRNA activity were extracted. Among PCa-associated ceRNAs
including T-UCR, we identified genes with significant expression differences between
PCa and normal prostate tissue using the GEPIA database. The statistical
evaluation of the association of NFAT5 and PTBP2 genes with PCa was performed
by Spearman correlation test in GEPIA database.

Results:
PCa-associated ceRNAs cross-matching with genes including T-UCR in their exonic
regions were NFAT5, CLK3, PTBP2, CPEB4, MIPOL1 and TCF4. We identified genes
with significant expression differences between PCa and normal prostate tissues
among PCa-associated ceRNAs including T-UCR. According to this analysis, NFAT5
and PTBP2 genes were significantly less expressed in PCa than in normal
prostate tissue while the others didn’t show any significant differential
expression pattern. NFAT5 and PTBP2 genes were found to be significantly
associated with PCa (p=0.000012; R=0.72).

Conclusion:
All in all, this is the study associating NFAT5 and PTBP2 genes with PCa and
giving them tumor suppressive potential for PCa. Still, larger and more
comprehensive studies are needed on this issue.

Keywords

Prostate cancer, miRNA, ceRNA, T-UCR

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