Design and evaluation of genome-wide libraries for RNA interference screens

Genome Biol. 2010;11(6):R61. doi: 10.1186/gb-2010-11-6-r61. Epub 2010 Jun 15.


RNA interference (RNAi) screens have enabled the systematic analysis of many biological processes in cultured cells and whole organisms. The success of such screens and the interpretation of the data depend on the stringent design of RNAi libraries. We describe and validate NEXT-RNAi, a software for the automated design and evaluation of RNAi sequences on a genome-wide scale. NEXT-RNAi is implemented as open-source software and is accessible at

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Anopheles / genetics
  • Computational Biology / methods*
  • Drosophila melanogaster / enzymology
  • Drosophila melanogaster / genetics
  • Gene Knockdown Techniques
  • Genome / genetics*
  • Genome, Human / genetics
  • Genomic Library*
  • Humans
  • Phosphoprotein Phosphatases / metabolism
  • Quality Control
  • RNA Interference*
  • RNA, Small Interfering / metabolism
  • Reproducibility of Results
  • Software*
  • Tribolium / genetics


  • RNA, Small Interfering
  • Phosphoprotein Phosphatases