Protocols

GIST specifications

Information


Unique identifier OMICS_08281
Name GIST
Alternative name Genomic Island Suite of Tools
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Dongsheng Che

Publication for Genomic Island Suite of Tools

GIST citations

 (2)
library_books

Microevolution Analysis of Bacillus coahuilensis Unveils Differences in Phosphorus Acquisition Strategies and Their Regulation

2016
Front Microbiol
PMCID: 4744853
PMID: 26903955
DOI: 10.3389/fmicb.2016.00058

[…] rching for orthologous genes, according to a previously described methodology (). The genome alignment was performed and visualized using the Mauve software tool v2.4 (). GI were identified using the Genomic Island Suite of Tools GIST v1.0 () and determination of GC% in these genomic regions. Identification of mobile genetic elements (MGE) was performed using PHAST web server for the phage sequenc […]

call_split

Insights into Ongoing Evolution of the Hexachlorocyclohexane Catabolic Pathway from Comparative Genomics of Ten Sphingomonadaceae Strains

2015
PMCID: 4478539
PMID: 25850427
DOI: 10.1534/g3.114.015933
call_split See protocol

[…] calculated with JSpecies (). Whole-genome alignments were performed against UT26, LL01, LL02 and LL03 using MUMmer () and regions of horizontal transfer in each target genome were predicted with the Genomic Island Suite of Tools (GIST), which combines the results of several common horizontal transfer prediction tools to produce a single, improved estimate (). This information was visualized using […]

GIST institution(s)
Department of Computer Science, East Stroudsburg University, East Stroudsburg, PA, USA

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