APAlyzer: a bioinformatics package for analysis of alternative polyadenylation isoforms.
basic_science · Level V
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- Record sourced from PubMed, PMID 32321166.
- Also identified by DOI 10.1093/bioinformatics/btaa266 and PMC identifier 7320624.
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Abstract
Most eukaryotic genes produce alternative polyadenylation (APA) isoforms. APA is dynamically regulated under different growth and differentiation conditions. Here, we present a bioinformatics package, named APAlyzer, for examining 3'UTR APA, intronic APA and gene expression changes using RNA-seq data and annotated polyadenylation sites in the PolyA_DB database. Using APAlyzer and data from the GTEx database, we present APA profiles across human tissues. APAlyzer is freely available at https://bioconductor.org/packages/release/bioc/html/APAlyzer.html as an R/Bioconductor package. Supplementary data are available at Bioinformatics online.
Medical subject headings
- Computational Biology
- Polyadenylation