Ub-ISAP

Ub-ISAP is a software tool that is designed to automate the identification and annotation of viral vector genomic integration sites using a UNIX-based workflow. It can identify and classify unique integration sites as transcription start site-proximal, intragenic or intergenic from both single and paired-end sequencing reads. The tool has broad applications in gene therapy and cancer research and is available as an open-source software package.

Topic

Personalised medicine;Genomics;Nucleic acid sites, features and motifs;NGS;Virology

Detail

  • Operation: Virulence prediction

  • Software interface: Command-line user interface

  • Language: -

  • License: -

  • Cost: Free

  • Version name: -

  • Credit: The Kids Cancer Project (TKCP) and Kids Cancer Alliance (KCA).

  • Input: -

  • Output: -

  • Contact: atul.kamboj@health.nsw.gov.au

  • Collection: -

  • Maturity: -

Publications

  • Ub-ISAP: a streamlined UNIX pipeline for mining unique viral vector integration sites from next generation sequencing data.
  • Kamboj A, et al. Ub-ISAP: a streamlined UNIX pipeline for mining unique viral vector integration sites from next generation sequencing data. Ub-ISAP: a streamlined UNIX pipeline for mining unique viral vector integration sites from next generation sequencing data. 2017; 18:305. doi: 10.1186/s12859-017-1719-4
  • https://doi.org/10.1186/s12859-017-1719-4
  • PMID: 28623888
  • PMC: PMC5474025

Download and documentation

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