Pseudogenes as competitive endogenous RNAs: target prediction and validation

Methods Mol Biol. 2014:1167:199-212. doi: 10.1007/978-1-4939-0835-6_13.

Abstract

Pseudogenes may regulate expression of their parental genes as well as other protein-coding genes through various mechanisms. One such mechanism is the ability to act as competitive endogenous RNA (ceRNA) and participate in microRNA-mediated cross-regulation. Here, we outline how to predict the targets of pseudogene ceRNAs bioinformatically and how to validate them experimentally.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • 3' Untranslated Regions
  • Computational Biology / methods*
  • Gene Expression
  • Gene Silencing
  • Genes, Reporter
  • Genomics / methods*
  • Humans
  • MicroRNAs / genetics
  • Pseudogenes / genetics*
  • RNA / genetics*
  • RNA Interference
  • RNA, Messenger / genetics
  • Reproducibility of Results
  • Ribonuclease III / deficiency
  • Ribonuclease III / genetics
  • Ribonuclease III / metabolism

Substances

  • 3' Untranslated Regions
  • MicroRNAs
  • RNA, Messenger
  • RNA
  • Ribonuclease III