DarkHorse: a method for genome-wide prediction of horizontal gene transfer

A new approach to rapid, genome-wide identification and ranking of horizontal transfer candidate proteins is presented. The method is quantitative, reproducible, and computationally undemanding. It can be combined with genomic signature and/or phylogenetic tree-building procedures to improve accurac...

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Detalles Bibliográficos
Autores principales: Podell, Sheila, Gaasterland, Terry
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2007
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1852411/
https://www.ncbi.nlm.nih.gov/pubmed/17274820
http://dx.doi.org/10.1186/gb-2007-8-2-r16
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author Podell, Sheila
Gaasterland, Terry
author_facet Podell, Sheila
Gaasterland, Terry
author_sort Podell, Sheila
collection PubMed
description A new approach to rapid, genome-wide identification and ranking of horizontal transfer candidate proteins is presented. The method is quantitative, reproducible, and computationally undemanding. It can be combined with genomic signature and/or phylogenetic tree-building procedures to improve accuracy and efficiency. The method is also useful for retrospective assessments of horizontal transfer prediction reliability, recognizing orthologous sequences that may have been previously overlooked or unavailable. These features are demonstrated in bacterial, archaeal, and eukaryotic examples.
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spelling pubmed-18524112007-04-18 DarkHorse: a method for genome-wide prediction of horizontal gene transfer Podell, Sheila Gaasterland, Terry Genome Biol Method A new approach to rapid, genome-wide identification and ranking of horizontal transfer candidate proteins is presented. The method is quantitative, reproducible, and computationally undemanding. It can be combined with genomic signature and/or phylogenetic tree-building procedures to improve accuracy and efficiency. The method is also useful for retrospective assessments of horizontal transfer prediction reliability, recognizing orthologous sequences that may have been previously overlooked or unavailable. These features are demonstrated in bacterial, archaeal, and eukaryotic examples. BioMed Central 2007 2007-02-02 /pmc/articles/PMC1852411/ /pubmed/17274820 http://dx.doi.org/10.1186/gb-2007-8-2-r16 Text en Copyright © 2007 Podell 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
Podell, Sheila
Gaasterland, Terry
DarkHorse: a method for genome-wide prediction of horizontal gene transfer
title DarkHorse: a method for genome-wide prediction of horizontal gene transfer
title_full DarkHorse: a method for genome-wide prediction of horizontal gene transfer
title_fullStr DarkHorse: a method for genome-wide prediction of horizontal gene transfer
title_full_unstemmed DarkHorse: a method for genome-wide prediction of horizontal gene transfer
title_short DarkHorse: a method for genome-wide prediction of horizontal gene transfer
title_sort darkhorse: a method for genome-wide prediction of horizontal gene transfer
topic Method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1852411/
https://www.ncbi.nlm.nih.gov/pubmed/17274820
http://dx.doi.org/10.1186/gb-2007-8-2-r16
work_keys_str_mv AT podellsheila darkhorseamethodforgenomewidepredictionofhorizontalgenetransfer
AT gaasterlandterry darkhorseamethodforgenomewidepredictionofhorizontalgenetransfer

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