{"title":"A Heterogeneous Parallel Ecologically-Inspired Approach Applied to the 3D-AB Off-Lattice Protein Structure Prediction Problem","authors":"C. Benítez, Rafael Stubs Parpinelli, H. S. Lopes","doi":"10.1109/BRICS-CCI-CBIC.2013.104","DOIUrl":null,"url":null,"abstract":"This paper applies a heterogeneous parallel ecology-inspired algorithm (pECO) to solve a complex problem from bioinformatics. The ecological-inspired algorithm represents a new perspective to develop cooperative evolutionary algorithms. Different algorithms are applied to compose the computational ecosystem in a heterogeneous model. The aim is to search low energy conformations for the Protein Structure Prediction problem, concerning the 3D-AB off-lattice model. Being a problem that demands a lot of computational effort, a parallel master-slave architecture is employed in order to allow the application of the computational ecosystem in a reasonable computing time. From the results, the pECO approach obtained the best conformation for the 13 amino-acid long sequence and competitive results for the other sequences.","PeriodicalId":306195,"journal":{"name":"2013 BRICS Congress on Computational Intelligence and 11th Brazilian Congress on Computational Intelligence","volume":null,"pages":null},"PeriodicalIF":0.0000,"publicationDate":"2013-09-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"11","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"2013 BRICS Congress on Computational Intelligence and 11th Brazilian Congress on Computational Intelligence","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.1109/BRICS-CCI-CBIC.2013.104","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
引用次数: 11
Abstract
This paper applies a heterogeneous parallel ecology-inspired algorithm (pECO) to solve a complex problem from bioinformatics. The ecological-inspired algorithm represents a new perspective to develop cooperative evolutionary algorithms. Different algorithms are applied to compose the computational ecosystem in a heterogeneous model. The aim is to search low energy conformations for the Protein Structure Prediction problem, concerning the 3D-AB off-lattice model. Being a problem that demands a lot of computational effort, a parallel master-slave architecture is employed in order to allow the application of the computational ecosystem in a reasonable computing time. From the results, the pECO approach obtained the best conformation for the 13 amino-acid long sequence and competitive results for the other sequences.