CSSMD: assessing collective activity for addressing off-target effects in genome-scale RNA interference screens.

ABSTRACT:

Motivation

Off-target activity commonly exists in RNA interference (RNAi) screens and often generates false positives. Existing analytic methods for addressing the off-target effects are demonstrably inadequate in RNAi confirmatory screens.

Results

Here, we present an analytic method assessing the collective activity of multiple short interfering RNAs (siRNAs) targeting a gene. Using this method, we can not only reduce the impact of off-target activities, but also evaluate the specific effect of an siRNA, thus providing information about potential off-target effects. Using in-house RNAi screens, we demonstrate that our method obtains more reasonable and sensible results than current methods such as the redundant siRNA activity (RSA) method, the RNAi gene enrichment ranking (

SUBMITTER: Zhang XD 

PROVIDER: S-EPMC3202303 | biostudies-literature | 2011 Oct

REPOSITORIES: biostudies-literature