Evolutionary decision rules for predicting protein contact maps

Protein structure prediction is currently one of the main open challenges in Bioinformatics. The protein contact map is an useful, and commonly used, represen tation for protein 3D structure and represents binary proximities (contact or non-contact) between each pair of amino acids of a protein. In...

Descripción completa

Detalles Bibliográficos
Autores: Márquez Chamorro, Alfonso Eduardo, Asencio Cortés, Gualberto, Divina, Federico, Aguilar Ruiz, Jesús Salvador
Tipo de recurso: artículo
Estado:Versión enviada para evaluación y publicación
Fecha de publicación:2012
País:España
Institución:Universidad de Sevilla (US)
Repositorio:idUS. Depósito de Investigación de la Universidad de Sevilla
OAI Identifier:oai:idus.us.es:11441/133505
Acceso en línea:https://hdl.handle.net/11441/133505
https://doi.org/10.1007/s10044-012-0297-3
Access Level:acceso abierto
Palabra clave:Protein structure prediction
Contact Map
Multi-objective evolutionary computation
Residue-residue contact
id ES_9b1b9e38286ea43a021bdee1bf2ae4f1
oai_identifier_str oai:idus.us.es:11441/133505
network_acronym_str ES
network_name_str España
repository_id_str
spelling Evolutionary decision rules for predicting protein contact mapsMárquez Chamorro, Alfonso EduardoAsencio Cortés, GualbertoDivina, FedericoAguilar Ruiz, Jesús SalvadorProtein structure predictionContact MapMulti-objective evolutionary computationResidue-residue contactProtein structure prediction is currently one of the main open challenges in Bioinformatics. The protein contact map is an useful, and commonly used, represen tation for protein 3D structure and represents binary proximities (contact or non-contact) between each pair of amino acids of a protein. In this work, we propose a multi objective evolutionary approach for contact map prediction based on physico-chemical properties of amino acids. The evolutionary algorithm produces a set of decision rules that identifies contacts between amino acids. The rules obtained by the algorithm impose a set of conditions based on amino acid properties to predict contacts. We present results obtained by our approach on four different protein data sets. A statistical study was also performed to extract valid conclusions from the set of prediction rules generated by our algorithm. Results obtained confirm the validity of our proposal.SpringerLenguajes y Sistemas Informáticos2012info:eu-repo/semantics/articleinfo:eu-repo/semantics/submittedVersionapplication/pdfapplication/pdfhttps://hdl.handle.net/11441/133505https://doi.org/10.1007/s10044-012-0297-3reponame:idUS. Depósito de Investigación de la Universidad de Sevillainstname:Universidad de Sevilla (US)InglésPattern Analysis and Applications, 17 (4), 725-737.https://link.springer.com/article/10.1007/s10044-012-0297-3info:eu-repo/semantics/openAccessoai:idus.us.es:11441/1335052026-06-17T12:51:07Z
dc.title.none.fl_str_mv Evolutionary decision rules for predicting protein contact maps
title Evolutionary decision rules for predicting protein contact maps
spellingShingle Evolutionary decision rules for predicting protein contact maps
Márquez Chamorro, Alfonso Eduardo
Protein structure prediction
Contact Map
Multi-objective evolutionary computation
Residue-residue contact
title_short Evolutionary decision rules for predicting protein contact maps
title_full Evolutionary decision rules for predicting protein contact maps
title_fullStr Evolutionary decision rules for predicting protein contact maps
title_full_unstemmed Evolutionary decision rules for predicting protein contact maps
title_sort Evolutionary decision rules for predicting protein contact maps
dc.creator.none.fl_str_mv Márquez Chamorro, Alfonso Eduardo
Asencio Cortés, Gualberto
Divina, Federico
Aguilar Ruiz, Jesús Salvador
author Márquez Chamorro, Alfonso Eduardo
author_facet Márquez Chamorro, Alfonso Eduardo
Asencio Cortés, Gualberto
Divina, Federico
Aguilar Ruiz, Jesús Salvador
author_role author
author2 Asencio Cortés, Gualberto
Divina, Federico
Aguilar Ruiz, Jesús Salvador
author2_role author
author
author
dc.contributor.none.fl_str_mv Lenguajes y Sistemas Informáticos
dc.subject.none.fl_str_mv Protein structure prediction
Contact Map
Multi-objective evolutionary computation
Residue-residue contact
topic Protein structure prediction
Contact Map
Multi-objective evolutionary computation
Residue-residue contact
description Protein structure prediction is currently one of the main open challenges in Bioinformatics. The protein contact map is an useful, and commonly used, represen tation for protein 3D structure and represents binary proximities (contact or non-contact) between each pair of amino acids of a protein. In this work, we propose a multi objective evolutionary approach for contact map prediction based on physico-chemical properties of amino acids. The evolutionary algorithm produces a set of decision rules that identifies contacts between amino acids. The rules obtained by the algorithm impose a set of conditions based on amino acid properties to predict contacts. We present results obtained by our approach on four different protein data sets. A statistical study was also performed to extract valid conclusions from the set of prediction rules generated by our algorithm. Results obtained confirm the validity of our proposal.
publishDate 2012
dc.date.none.fl_str_mv 2012
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/submittedVersion
format article
status_str submittedVersion
dc.identifier.none.fl_str_mv https://hdl.handle.net/11441/133505
https://doi.org/10.1007/s10044-012-0297-3
url https://hdl.handle.net/11441/133505
https://doi.org/10.1007/s10044-012-0297-3
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Pattern Analysis and Applications, 17 (4), 725-737.
https://link.springer.com/article/10.1007/s10044-012-0297-3
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Springer
publisher.none.fl_str_mv Springer
dc.source.none.fl_str_mv reponame:idUS. Depósito de Investigación de la Universidad de Sevilla
instname:Universidad de Sevilla (US)
instname_str Universidad de Sevilla (US)
reponame_str idUS. Depósito de Investigación de la Universidad de Sevilla
collection idUS. Depósito de Investigación de la Universidad de Sevilla
repository.name.fl_str_mv
repository.mail.fl_str_mv
_version_ 1869414477421608960
score 15,301629

Similares en LA Referencia