Materials and Methods Bioinformatics Analysis of Small Rna Libraries
نویسنده
چکیده
Bioinformatics Analysis of Small RNA Libraries Small RNA sequences were stripped of the 3’ adaptor and mapped to the Drosophila release 5 genome (Ensembl/BDGP5.25) with up to 2 mismatch using Bowtie (version 1.0.0). Only uniquely mapped sequences were retained (this typically corresponds to roughly 76-85% of all obtained reads) for future analysis. For annotations, we used Flybase for protein coding genes, UCSC for non-coding RNAs, Repbase for transposons and repeats, miRBase for the most recent miRNA. Prior to any analysis, small RNAs annotated as rRNA, tRNA and snoRNA fragments were removed. Libraries were normalized to a subset of miRNAs to allow for cross-analysis. The identity of piRNA clusters is as previously described [1].
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