ASJA

ASJA (Assembling Splice Junctions Analysis) is a software package designed to identify and characterize various splice junctions, including linear, back-splice, and fusion junctions, from high-throughput RNA sequencing (RNA-seq) data. The tool processes assembled transcripts and chimeric alignments generated by the STAR aligner and StringTie assembler.

Key features of ASJA include:

1. Identification of unique positions for each splice junction
2. Calculation of normalized expression levels for each junction
3. Annotation and integrative analysis of junctions to enable additional filtering
4. Capability to identify novel splice junctions

Topic

RNA-Seq;RNA splicing;Gene transcripts

Detail

  • Operation: Splice transcript prediction;RNA-Seq quantification;Sequence merging

  • Software interface: Command-line user interface

  • Language: Perl

  • License: Not stated

  • Cost: Free of charge

  • Version name: -

  • Credit: The National Natural Science Foundation of China, the Shanghai Sailing Program.

  • Input: -

  • Output: -

  • Contact: Qiupeng Zheng zhengqiupeng@gmail.com ,Shenglin Huang slhuang@fudan.edu.cn

  • Collection: -

  • Maturity: -

Publications

  • ASJA: A Program for Assembling Splice Junctions Analysis.
  • Zhao J, et al. ASJA: A Program for Assembling Splice Junctions Analysis. ASJA: A Program for Assembling Splice Junctions Analysis. 2019; 17:1143-1150. doi: 10.1016/j.csbj.2019.08.001
  • https://doi.org/10.1016/J.CSBJ.2019.08.001
  • PMID: 31462970
  • PMC: PMC6709372

Download and documentation

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