GOHTAM: a website for ‘Genomic Origin of Horizontal Transfers, Alignment and Metagenomics’

Motivation: This website allows the detection of horizontal transfers based on a combination of parametric methods and proposes an origin by researching neighbors in a bank of genomic signatures. This bank is also used to research an origin to DNA fragments from metagenomics studies. Results: Differ...

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Detalles Bibliográficos
Autores principales: Ménigaud, Sabine, Mallet, Ludovic, Picord, Géraldine, Churlaud, Cécile, Borrel, Alexandre, Deschavanne, Patrick
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2012
Materias:
Applications Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3338014/
https://www.ncbi.nlm.nih.gov/pubmed/22426345
http://dx.doi.org/10.1093/bioinformatics/bts118
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author Ménigaud, Sabine
Mallet, Ludovic
Picord, Géraldine
Churlaud, Cécile
Borrel, Alexandre
Deschavanne, Patrick
author_facet Ménigaud, Sabine
Mallet, Ludovic
Picord, Géraldine
Churlaud, Cécile
Borrel, Alexandre
Deschavanne, Patrick
author_sort Ménigaud, Sabine
collection PubMed
description Motivation: This website allows the detection of horizontal transfers based on a combination of parametric methods and proposes an origin by researching neighbors in a bank of genomic signatures. This bank is also used to research an origin to DNA fragments from metagenomics studies. Results: Different services are provided like the possibility of inferring a phylogenetic tree with sequence signatures or comparing two genomes and displaying the rearrangements that happened since their separation. Availability and implementation: http://gohtam.rpbs.univ-paris-diderot.fr/ Contact: patrick.deschavanne@univ-paris-diderot.fr; ludovic.mallet@jouy.inra.fr Supplementary information: Supplementary data are available at Bioinformatics online http://gohtam.rpbs.univ-paris-diderot.fr:8080/Data/bin/GOHTAM_bin.tgz
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spelling pubmed-33380142012-04-27 GOHTAM: a website for ‘Genomic Origin of Horizontal Transfers, Alignment and Metagenomics’ Ménigaud, Sabine Mallet, Ludovic Picord, Géraldine Churlaud, Cécile Borrel, Alexandre Deschavanne, Patrick Bioinformatics Applications Note Motivation: This website allows the detection of horizontal transfers based on a combination of parametric methods and proposes an origin by researching neighbors in a bank of genomic signatures. This bank is also used to research an origin to DNA fragments from metagenomics studies. Results: Different services are provided like the possibility of inferring a phylogenetic tree with sequence signatures or comparing two genomes and displaying the rearrangements that happened since their separation. Availability and implementation: http://gohtam.rpbs.univ-paris-diderot.fr/ Contact: patrick.deschavanne@univ-paris-diderot.fr; ludovic.mallet@jouy.inra.fr Supplementary information: Supplementary data are available at Bioinformatics online http://gohtam.rpbs.univ-paris-diderot.fr:8080/Data/bin/GOHTAM_bin.tgz Oxford University Press 2012-05-01 2012-03-15 /pmc/articles/PMC3338014/ /pubmed/22426345 http://dx.doi.org/10.1093/bioinformatics/bts118 Text en © The Author(s) 2012. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/3.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Note
Ménigaud, Sabine
Mallet, Ludovic
Picord, Géraldine
Churlaud, Cécile
Borrel, Alexandre
Deschavanne, Patrick
GOHTAM: a website for ‘Genomic Origin of Horizontal Transfers, Alignment and Metagenomics’
title GOHTAM: a website for ‘Genomic Origin of Horizontal Transfers, Alignment and Metagenomics’
title_full GOHTAM: a website for ‘Genomic Origin of Horizontal Transfers, Alignment and Metagenomics’
title_fullStr GOHTAM: a website for ‘Genomic Origin of Horizontal Transfers, Alignment and Metagenomics’
title_full_unstemmed GOHTAM: a website for ‘Genomic Origin of Horizontal Transfers, Alignment and Metagenomics’
title_short GOHTAM: a website for ‘Genomic Origin of Horizontal Transfers, Alignment and Metagenomics’
title_sort gohtam: a website for ‘genomic origin of horizontal transfers, alignment and metagenomics’
topic Applications Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3338014/
https://www.ncbi.nlm.nih.gov/pubmed/22426345
http://dx.doi.org/10.1093/bioinformatics/bts118
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