Transposon insertion mapping with PIMMS - Pragmatic Insertional Mutation Mapping System.

Abstract:

UNLABELLED:The PIMMS (Pragmatic Insertional Mutation Mapping System) pipeline has been developed for simple conditionally essential genome discovery experiments in bacteria. Capable of using raw sequence data files alongside a FASTA sequence of the reference genome and GFF file, PIMMS will generate a tabulated output of each coding sequence with corresponding mapped insertions accompanied with normalized results enabling streamlined analysis. This allows for a quick assay of the genome to identify conditionally essential genes on a standard desktop computer prioritizing results for further investigation. AVAILABILITY:The PIMMS script, manual and accompanying test data is freely available at https://github.com/ADAC-UoN/PIMMS.

journal_name

Front Genet

journal_title

Frontiers in genetics

authors

Blanchard AM,Leigh JA,Egan SA,Emes RD

doi

10.3389/fgene.2015.00139

subject

Has Abstract

pub_date

2015-04-09 00:00:00

pages

139

issn

1664-8021

journal_volume

6

pub_type

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