Detecting microRNA binding and siRNA off-target effects from expression data.
basic_science · Level V
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- Record sourced from PubMed, PMID 18978784.
- Also identified by DOI 10.1038/nmeth.1267 and PMC identifier 2635553.
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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.
Medical subject headings
- Algorithms
- Gene Expression Profiling
- Gene Targeting
- MicroRNAs
- RNA, Small Interfering
- Sequence Analysis, DNA