In silico analysis of biomarker potentials of miRNA-mediated ceRNAs in prostate cancer
In silico analysis of biomarker potentials of miRNA-mediated ceRNAs in prostate cancer
Yazar: Ergün, Sercan
Dergi: Dicle Tıp Dergisi, Vol. 45 No. 4, 2018
Anahtar kelimeler: Prostate cancer,miRNA,ceRNA,T-UCR

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 theircombinatorial target genes (potential ceRNAs), selects ones containingTranscribed Ultra Conserved Region (T-UCR) among them and potentiates theirrelevance with PCa.Methods:Thirty-four miRNAs of which clinical relevances with PCa were provedexperimentally were exported via miRWalk database.Using the ComiR database, 859genes targeted by these 34 miRNAs simultaneously were identified. Genes withComiR score above 0.911 were taken into account. Genes containing T-UCR andshowing potential ceRNA activity were extracted. Among PCa-associated ceRNAsincluding T-UCR, we identified genes with significant expression differences betweenPCa and normal prostate tissue using the GEPIA database. The statisticalevaluation of the association of NFAT5 and PTBP2 genes with PCa was performedby Spearman correlation test in GEPIA database.Results:PCa-associated ceRNAs cross-matching with genes including T-UCR in their exonicregions were NFAT5, CLK3, PTBP2, CPEB4, MIPOL1 and TCF4. We identified geneswith significant expression differences between PCa and normal prostate tissuesamong PCa-associated ceRNAs including T-UCR. According to this analysis, NFAT5and PTBP2 genes were significantly less expressed in PCa than in normalprostate tissue while the others didn’t show any significant differentialexpression pattern. NFAT5 and PTBP2 genes were found to be significantlyassociated with PCa (p=0.000012; R=0.72).Conclusion:All in all, this is the study associating NFAT5 and PTBP2 genes with PCa andgiving them tumor suppressive potential for PCa. Still, larger and morecomprehensive studies are needed on this issue.

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 theircombinatorial target genes (potential ceRNAs), selects ones containingTranscribed Ultra Conserved Region (T-UCR) among them and potentiates theirrelevance with PCa.Methods:Thirty-four miRNAs of which clinical relevances with PCa were provedexperimentally were exported via miRWalk database.Using the ComiR database, 859genes targeted by these 34 miRNAs simultaneously were identified. Genes withComiR score above 0.911 were taken into account. Genes containing T-UCR andshowing potential ceRNA activity were extracted. Among PCa-associated ceRNAsincluding T-UCR, we identified genes with significant expression differences betweenPCa and normal prostate tissue using the GEPIA database. The statisticalevaluation of the association of NFAT5 and PTBP2 genes with PCa was performedby Spearman correlation test in GEPIA database.Results:PCa-associated ceRNAs cross-matching with genes including T-UCR in their exonicregions were NFAT5, CLK3, PTBP2, CPEB4, MIPOL1 and TCF4. We identified geneswith significant expression differences between PCa and normal prostate tissuesamong PCa-associated ceRNAs including T-UCR. According to this analysis, NFAT5and PTBP2 genes were significantly less expressed in PCa than in normalprostate tissue while the others didn’t show any significant differentialexpression pattern. NFAT5 and PTBP2 genes were found to be significantlyassociated with PCa (p=0.000012; R=0.72).Conclusion:All in all, this is the study associating NFAT5 and PTBP2 genes with PCa andgiving them tumor suppressive potential for PCa. Still, larger and morecomprehensive studies are needed on this issue.