In silico prediction and experimental validation of natural antisense transcripts in two cancer-associated regions of human chromosome 6

Laura Monti, Raffaella Cinquetti, Alessandro Guffanti, Francesco Nicassio, Mattia Cremona, Giovanni Lavorgna, Fabrizio Bianchi, Francesca Vignati, Davide Cittaro, Roberto Taramelli, Francesco Acquati

Research output: Contribution to journalArticlepeer-review

Abstract

Antisense transcription has long been recognized as a mechanism involved in the regulation of gene expression. Therefore, several human diseases associated with abnormal patterns of gene expression might display antisense RNA-mediated pathogenetic mechanisms. Such issue could be particularly relevant for cancer pathogenesis, since deregulated gene expression has long been established as a hallmark of cancer cells. Herein, we report on a bioinformatic search for antisense transcription in two cancer-associated regions of human chromosome 6 (6q21 and 6q27). Natural antisense transcripts (NATs) for several genes in both genomic regions were predicted in silico and subsequently validated by strand-specific RT-PCR. Detailed experimental validation by quantitative real-time RT-PCR of five putative cancer related sense-antisense transcript pairs revealed a single candidate tumor suppressor gene (RPS6KA2) whose expression levels display marked cancer-related changes that are likely mediated by its antisense RNA in a breast cancer cell line model.

Original languageEnglish
Pages (from-to)1099-1108
Number of pages10
JournalInternational Journal of Oncology
Volume34
Issue number4
DOIs
Publication statusPublished - 2009

Keywords

  • Antisense RNA
  • Chromosome 6
  • Transcriptional regulation
  • Tumor suppressor genes

ASJC Scopus subject areas

  • Cancer Research
  • Oncology

Fingerprint Dive into the research topics of 'In silico prediction and experimental validation of natural antisense transcripts in two cancer-associated regions of human chromosome 6'. Together they form a unique fingerprint.

Cite this