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PhyleasProg: a user-oriented web server for wide evolutionary analyses
Evolutionary analyses of biological data are becoming a prerequisite in many fields of biology. At a time of high-throughput data analysis, phylogenetics is often a necessary complementary tool for biologists to understand, compare and identify the functions of sequences. But available bioinformatic...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2011
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3125726/ https://www.ncbi.nlm.nih.gov/pubmed/21531699 http://dx.doi.org/10.1093/nar/gkr243 |
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author | Busset, Joël Cabau, Cédric Meslin, Camille Pascal, Géraldine |
author_facet | Busset, Joël Cabau, Cédric Meslin, Camille Pascal, Géraldine |
author_sort | Busset, Joël |
collection | PubMed |
description | Evolutionary analyses of biological data are becoming a prerequisite in many fields of biology. At a time of high-throughput data analysis, phylogenetics is often a necessary complementary tool for biologists to understand, compare and identify the functions of sequences. But available bioinformatics tools are frequently not easy for non-specialists to use. We developed PhyleasProg (http://phyleasprog.inra.fr), a user-friendly web server as a turnkey tool dedicated to evolutionary analyses. PhyleasProg can help biologists with little experience in evolutionary methodologies by analysing their data in a simple and robust way, using methods corresponding to robust standards. Via a very intuitive web interface, users only need to enter a list of Ensembl protein IDs and a list of species as inputs. After dynamic computations, users have access to phylogenetic trees, positive/purifying selection data (on site and branch-site models), with a display of these results on the protein sequence and on a 3D structure model, and the synteny environment of related genes. This connection between different domains of phylogenetics opens the way to new biological analyses for the discovery of the function and structure of proteins. |
format | Online Article Text |
id | pubmed-3125726 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2011 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-31257262011-07-05 PhyleasProg: a user-oriented web server for wide evolutionary analyses Busset, Joël Cabau, Cédric Meslin, Camille Pascal, Géraldine Nucleic Acids Res Articles Evolutionary analyses of biological data are becoming a prerequisite in many fields of biology. At a time of high-throughput data analysis, phylogenetics is often a necessary complementary tool for biologists to understand, compare and identify the functions of sequences. But available bioinformatics tools are frequently not easy for non-specialists to use. We developed PhyleasProg (http://phyleasprog.inra.fr), a user-friendly web server as a turnkey tool dedicated to evolutionary analyses. PhyleasProg can help biologists with little experience in evolutionary methodologies by analysing their data in a simple and robust way, using methods corresponding to robust standards. Via a very intuitive web interface, users only need to enter a list of Ensembl protein IDs and a list of species as inputs. After dynamic computations, users have access to phylogenetic trees, positive/purifying selection data (on site and branch-site models), with a display of these results on the protein sequence and on a 3D structure model, and the synteny environment of related genes. This connection between different domains of phylogenetics opens the way to new biological analyses for the discovery of the function and structure of proteins. Oxford University Press 2011-07-01 2011-04-29 /pmc/articles/PMC3125726/ /pubmed/21531699 http://dx.doi.org/10.1093/nar/gkr243 Text en © The Author(s) 2011. 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 | Articles Busset, Joël Cabau, Cédric Meslin, Camille Pascal, Géraldine PhyleasProg: a user-oriented web server for wide evolutionary analyses |
title | PhyleasProg: a user-oriented web server for wide evolutionary analyses |
title_full | PhyleasProg: a user-oriented web server for wide evolutionary analyses |
title_fullStr | PhyleasProg: a user-oriented web server for wide evolutionary analyses |
title_full_unstemmed | PhyleasProg: a user-oriented web server for wide evolutionary analyses |
title_short | PhyleasProg: a user-oriented web server for wide evolutionary analyses |
title_sort | phyleasprog: a user-oriented web server for wide evolutionary analyses |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3125726/ https://www.ncbi.nlm.nih.gov/pubmed/21531699 http://dx.doi.org/10.1093/nar/gkr243 |
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