POTION: an end-to-end pipeline for positive Darwinian selection detection in genome-scale data through phylogenetic comparison of protein-coding genes.

POTION: an end-to-end pipeline for positive Darwinian selection detection in genome-scale data through phylogenetic comparison of protein-coding genes.

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Abstract: Background: Detection of genes evolving under positive Darwinian evolution in genome-scale data is nowadays a prevailing strategy in comparative genomics studies to identify genes potentially involved in adaptation processes. Despite the large number of studies aiming to detect and contextualize such gene sets, there is virtually no software available to perform this task in a general, automatic, large-scale and reliable manner. This certainly occurs due to the computational challenges involved in this task, such as the appropriate modeling of data under analysis, the computation time to perform several of the required steps when dealing with genome-scale data and the highly error-prone nature of the sequence and alignment data structures needed for genome-wide positive selection detection.

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Bibliographic Details
Main Authors: HONGO, J. A., CASTRO, G. M. de, CINTRA, L. C., ZERLOTINI, A., LOBO, F. P.
Other Authors: JORGE A. HONGO, Bolsista CNPTIA; GIOVANNI M. DE CASTRO, Bolsista CNPTIA; LEANDRO CARRIJO CINTRA, CNPTIA; ADHEMAR ZERLOTINI NETO, CNPTIA; FRANCISCO PEREIRA LOBO, CNPTIA.
Format: Artigo de periódico biblioteca
Language:English
eng
Published: 2015-11-04
Subjects:Potion, Evolução Darwiniana, Comparative genomics, Positive selection, Gene, Fenótipo, Pesquisa, Genomics, Phylogeny, Genes, Genome,
Online Access:http://www.alice.cnptia.embrapa.br/alice/handle/doc/1027912
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spelling dig-alice-doc-10279122017-08-16T03:07:44Z POTION: an end-to-end pipeline for positive Darwinian selection detection in genome-scale data through phylogenetic comparison of protein-coding genes. HONGO, J. A. CASTRO, G. M. de CINTRA, L. C. ZERLOTINI, A. LOBO, F. P. JORGE A. HONGO, Bolsista CNPTIA; GIOVANNI M. DE CASTRO, Bolsista CNPTIA; LEANDRO CARRIJO CINTRA, CNPTIA; ADHEMAR ZERLOTINI NETO, CNPTIA; FRANCISCO PEREIRA LOBO, CNPTIA. Potion Evolução Darwiniana Comparative genomics Positive selection Gene Fenótipo Pesquisa Genomics Phylogeny Genes Genome Abstract: Background: Detection of genes evolving under positive Darwinian evolution in genome-scale data is nowadays a prevailing strategy in comparative genomics studies to identify genes potentially involved in adaptation processes. Despite the large number of studies aiming to detect and contextualize such gene sets, there is virtually no software available to perform this task in a general, automatic, large-scale and reliable manner. This certainly occurs due to the computational challenges involved in this task, such as the appropriate modeling of data under analysis, the computation time to perform several of the required steps when dealing with genome-scale data and the highly error-prone nature of the sequence and alignment data structures needed for genome-wide positive selection detection. 2015-11-04T11:11:11Z 2015-11-04T11:11:11Z 2015-11-04 2015 2016-06-22T11:11:11Z Artigo de periódico BMC Genomics, London, v. 16, p. 1-16, Aug. 2015. http://www.alice.cnptia.embrapa.br/alice/handle/doc/1027912 10.1186/s12864-015-1765-0 en eng openAccess
institution EMBRAPA
collection DSpace
country Brasil
countrycode BR
component Bibliográfico
access En linea
databasecode dig-alice
tag biblioteca
region America del Sur
libraryname Sistema de bibliotecas de EMBRAPA
language English
eng
topic Potion
Evolução Darwiniana
Comparative genomics
Positive selection
Gene
Fenótipo
Pesquisa
Genomics
Phylogeny
Genes
Genome
Potion
Evolução Darwiniana
Comparative genomics
Positive selection
Gene
Fenótipo
Pesquisa
Genomics
Phylogeny
Genes
Genome
spellingShingle Potion
Evolução Darwiniana
Comparative genomics
Positive selection
Gene
Fenótipo
Pesquisa
Genomics
Phylogeny
Genes
Genome
Potion
Evolução Darwiniana
Comparative genomics
Positive selection
Gene
Fenótipo
Pesquisa
Genomics
Phylogeny
Genes
Genome
HONGO, J. A.
CASTRO, G. M. de
CINTRA, L. C.
ZERLOTINI, A.
LOBO, F. P.
POTION: an end-to-end pipeline for positive Darwinian selection detection in genome-scale data through phylogenetic comparison of protein-coding genes.
description Abstract: Background: Detection of genes evolving under positive Darwinian evolution in genome-scale data is nowadays a prevailing strategy in comparative genomics studies to identify genes potentially involved in adaptation processes. Despite the large number of studies aiming to detect and contextualize such gene sets, there is virtually no software available to perform this task in a general, automatic, large-scale and reliable manner. This certainly occurs due to the computational challenges involved in this task, such as the appropriate modeling of data under analysis, the computation time to perform several of the required steps when dealing with genome-scale data and the highly error-prone nature of the sequence and alignment data structures needed for genome-wide positive selection detection.
author2 JORGE A. HONGO, Bolsista CNPTIA; GIOVANNI M. DE CASTRO, Bolsista CNPTIA; LEANDRO CARRIJO CINTRA, CNPTIA; ADHEMAR ZERLOTINI NETO, CNPTIA; FRANCISCO PEREIRA LOBO, CNPTIA.
author_facet JORGE A. HONGO, Bolsista CNPTIA; GIOVANNI M. DE CASTRO, Bolsista CNPTIA; LEANDRO CARRIJO CINTRA, CNPTIA; ADHEMAR ZERLOTINI NETO, CNPTIA; FRANCISCO PEREIRA LOBO, CNPTIA.
HONGO, J. A.
CASTRO, G. M. de
CINTRA, L. C.
ZERLOTINI, A.
LOBO, F. P.
format Artigo de periódico
topic_facet Potion
Evolução Darwiniana
Comparative genomics
Positive selection
Gene
Fenótipo
Pesquisa
Genomics
Phylogeny
Genes
Genome
author HONGO, J. A.
CASTRO, G. M. de
CINTRA, L. C.
ZERLOTINI, A.
LOBO, F. P.
author_sort HONGO, J. A.
title POTION: an end-to-end pipeline for positive Darwinian selection detection in genome-scale data through phylogenetic comparison of protein-coding genes.
title_short POTION: an end-to-end pipeline for positive Darwinian selection detection in genome-scale data through phylogenetic comparison of protein-coding genes.
title_full POTION: an end-to-end pipeline for positive Darwinian selection detection in genome-scale data through phylogenetic comparison of protein-coding genes.
title_fullStr POTION: an end-to-end pipeline for positive Darwinian selection detection in genome-scale data through phylogenetic comparison of protein-coding genes.
title_full_unstemmed POTION: an end-to-end pipeline for positive Darwinian selection detection in genome-scale data through phylogenetic comparison of protein-coding genes.
title_sort potion: an end-to-end pipeline for positive darwinian selection detection in genome-scale data through phylogenetic comparison of protein-coding genes.
publishDate 2015-11-04
url http://www.alice.cnptia.embrapa.br/alice/handle/doc/1027912
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