|Title||miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data.|
|Publication Type||Journal Article|
|Year of Publication||2010|
|Authors||Hendrix, D, Levine, M, Shi, W|
|Keywords||Animals, Base Sequence, Ciona intestinalis, Computational Biology, Genome, High-Throughput Screening Assays, MicroRNAs, Molecular Sequence Data, Phylogeny, Sequence Analysis, RNA|
MicroRNAs (miRs) have been broadly implicated in animal development and disease. We developed a novel computational strategy for the systematic, whole-genome identification of miRs from high throughput sequencing information. This method, miRTRAP, incorporates the mechanisms of miR biogenesis and includes additional criteria regarding the prevalence and quality of small RNAs arising from the antisense strand and neighboring loci. This program was applied to the simple chordate Ciona intestinalis and identified nearly 400 putative miR loci.
|Alternate Journal||Genome Biol.|