APAlyzer

APAlyzer is a bioinformatics package to analyze alternative polyadenylation (APA) isoforms produced by most eukaryotic genes. Leveraging RNA-seq data and annotated polyadenylation sites from the PolyA_DB database, APAlyzer enables examining changes in 3'UTR APA, intronic APA, and gene expression under various growth and differentiation conditions. Additionally, APA profiles across human tissues are presented using APAlyzer and data from the GTEx database.

Topic

Gene transcripts;RNA-Seq;Gene expression;Model organisms

Detail

  • Operation: RNA-Seq analysis

  • Software interface: Library

  • Language: R

  • License: GNU Lesser General Public License v3.0

  • Cost: Free

  • Version name: 1.16.0

  • Credit: The National Institutes of Health.

  • Input: -

  • Output: -

  • Contact: Ruijia Wang rjwang.bioinfo@gmail.com

  • Collection: -

  • Maturity: Stable

Publications

  • APAlyzer: a bioinformatics package for analysis of alternative polyadenylation isoforms.
  • Wang R and Tian B. APAlyzer: a bioinformatics package for analysis of alternative polyadenylation isoforms. APAlyzer: a bioinformatics package for analysis of alternative polyadenylation isoforms. 2020; 36:3907-3909. doi: 10.1093/bioinformatics/btaa266
  • https://doi.org/10.1093/BIOINFORMATICS/BTAA266
  • PMID: 32321166
  • PMC: PMC7320624

Download and documentation

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