Detecting microRNA binding and siRNA off-target effects from expression data.

ABSTRACT: Sylamer is a method for detecting microRNA target and small interfering RNA off-target signals in 3' untranslated regions from a ranked gene list, sorted from upregulated to downregulated, after a microRNA perturbation or RNA interference experiment. The output is a landscape plot that tracks occurrence biases using hypergeometric P-values for all words across the gene ranking. We demonstrated the utility, speed and accuracy of this approach on several datasets.

SUBMITTER: van Dongen S 

PROVIDER: S-EPMC2635553 | biostudies-literature | 2008 Dec

REPOSITORIES: biostudies-literature