Detecting microRNA binding and siRNA off-target effects from expression data.
Accepted version
Peer-reviewed
Repository URI
Repository DOI
Change log
Authors
van Dongen, Stijn
Abreu-Goodger, Cei
Enright, Anton J
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.
Description
Keywords
Algorithms, Gene Expression Profiling, Gene Targeting, MicroRNAs, RNA, Small Interfering, Sequence Analysis, DNA, Software
Journal Title
Nat Methods
Conference Name
Journal ISSN
1548-7091
1548-7105
1548-7105
Volume Title
5
Publisher
Springer Science and Business Media LLC