Frontiers in Genetics (Nov 2013)

A systematic experimental evaluation of microRNA markers of human bladder cancer

  • Anastasia eZabolotneva,
  • Anastasia eZabolotneva,
  • Anastasia eZabolotneva,
  • Alex A Zhavoronkov,
  • Alex A Zhavoronkov,
  • Peter V. Shegay,
  • Nurshat M. Gaifullin,
  • Boris Y. Alekseev,
  • Sergey A. Roumiantsev,
  • Andrey V Garazha,
  • Andrey V Garazha,
  • Andrey V Garazha,
  • Olga eKovalchuk,
  • Alexey eAravin,
  • Anton A. Buzdin,
  • Anton A. Buzdin,
  • Anton A. Buzdin

DOI
https://doi.org/10.3389/fgene.2013.00247
Journal volume & issue
Vol. 4

Abstract

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Background: MicroRNAs (miRNAs) are a class of small RNAs that regulate gene expression. They are aberrantly expressed in many human cancers and are potential therapeutic targets and molecular biomarkers. Methods: In this study, we for the first time validated the reported data on the entire set of published differential miRNAs (102 in total) through a series of transcriptome-wide experiments. We have conducted genome-wide miRNA profiling in 17 urothelial carcinoma bladder tissues and in nine normal urothelial mucosa samples using three methods: 1) An Illumina HT-12 microarray hybridization (MA) analysis 2) a suppression-subtractive hybridization (SSH) assay followed by deep sequencing (DS) and 3) DS alone. Results: We show that DS data correlate with previously published information in 87% of cases, whereas MA and SSH data have far smaller correlations with the published information (6% and 9% of cases, respectively). qRT-PCR tests confirmed reliability of the DS data.Conclusions: Based on our data, MA and SSH data appear to be inadequate for studying differential miRNA expression in the bladder. Impact: We report the first comprehensive validated database of miRNA markers of human bladder cancer.

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