ISsaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes

Insertion sequences (ISs) play a key role in prokaryotic genome evolution but are seldom well annotated. We describe a web application pipeline, ISsaga (http://issaga.biotoul.fr/ISsaga/issaga_index.php), that provides computational tools and methods for high-quality IS annotation. It uses establishe...

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Autores principales: Varani, Alessandro M, Siguier, Patricia, Gourbeyre, Edith, Charneau, Vincent, Chandler, Mick
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2011
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3129680/
https://www.ncbi.nlm.nih.gov/pubmed/21443786
http://dx.doi.org/10.1186/gb-2011-12-3-r30
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author Varani, Alessandro M
Siguier, Patricia
Gourbeyre, Edith
Charneau, Vincent
Chandler, Mick
author_facet Varani, Alessandro M
Siguier, Patricia
Gourbeyre, Edith
Charneau, Vincent
Chandler, Mick
author_sort Varani, Alessandro M
collection PubMed
description Insertion sequences (ISs) play a key role in prokaryotic genome evolution but are seldom well annotated. We describe a web application pipeline, ISsaga (http://issaga.biotoul.fr/ISsaga/issaga_index.php), that provides computational tools and methods for high-quality IS annotation. It uses established ISfinder annotation standards and permits rapid processing of single or multiple prokaryote genomes. ISsaga provides general prediction and annotation tools, information on genome context of individual ISs and a graphical overview of IS distribution around the genome of interest.
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spelling pubmed-31296802011-07-06 ISsaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes Varani, Alessandro M Siguier, Patricia Gourbeyre, Edith Charneau, Vincent Chandler, Mick Genome Biol Method Insertion sequences (ISs) play a key role in prokaryotic genome evolution but are seldom well annotated. We describe a web application pipeline, ISsaga (http://issaga.biotoul.fr/ISsaga/issaga_index.php), that provides computational tools and methods for high-quality IS annotation. It uses established ISfinder annotation standards and permits rapid processing of single or multiple prokaryote genomes. ISsaga provides general prediction and annotation tools, information on genome context of individual ISs and a graphical overview of IS distribution around the genome of interest. BioMed Central 2011 2011-03-28 /pmc/articles/PMC3129680/ /pubmed/21443786 http://dx.doi.org/10.1186/gb-2011-12-3-r30 Text en Copyright ©2011 Varani et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Method
Varani, Alessandro M
Siguier, Patricia
Gourbeyre, Edith
Charneau, Vincent
Chandler, Mick
ISsaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes
title ISsaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes
title_full ISsaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes
title_fullStr ISsaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes
title_full_unstemmed ISsaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes
title_short ISsaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes
title_sort issaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes
topic Method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3129680/
https://www.ncbi.nlm.nih.gov/pubmed/21443786
http://dx.doi.org/10.1186/gb-2011-12-3-r30
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