Atenção: Todas as denúncias são sigilosas e sua identidade será preservada.
Os campos nome e e-mail são de preenchimento opcional
Metadados | Descrição | Idioma |
---|---|---|
Autor(es): dc.creator | Boukerche, Azzedine | - |
Autor(es): dc.creator | Batista, Rodolfo Bezerra | - |
Autor(es): dc.creator | Melo, Alba Cristina Magalhães Alves de | - |
Autor(es): dc.creator | Scarel, Felipe Brandt | - |
Autor(es): dc.creator | Souza, Lavir Antonio Bahia Carvalho de | - |
Data de aceite: dc.date.accessioned | 2024-07-22T13:07:22Z | - |
Data de disponibilização: dc.date.available | 2024-07-22T13:07:22Z | - |
Data de envio: dc.date.issued | 2013-02-28 | - |
Data de envio: dc.date.issued | 2013-02-28 | - |
Data de envio: dc.date.issued | 2012 | - |
Fonte completa do material: dc.identifier | http://repositorio.unb.br/handle/10482/12257 | - |
Fonte completa do material: dc.identifier | https://dx.doi.org/10.1142/S0129054112400205 | - |
Fonte: dc.identifier.uri | http://educapes.capes.gov.br/handle/capes/818382 | - |
Descrição: dc.description | Sequence Alignment is a basic operation in Bioinformatics that is performed thousands of times, on daily basis. The exact methods for pairwise alignment have quadratic time complexity. For this reason, heuristic methods such as BLAST are widely used. To obtain exact results faster, parallel strategies have been proposed but most of them fail to align huge biological sequences. This happens because not only the quadratic time must be considered but also the space should be reduced. In this paper, we evaluate the performance of Z-align, a parallel exact strategy that runs in user-restricted memory space. Also, we propose and evaluate a tunable work distribution mechanism. The results obtained in two clusters show that two sequences of size 24MBP (Mega Base Pairs) and 23MBP, respectively, were successfully aligned with Z-align. Also, in order to align two 3MBP sequences, a speedup of 34.35 was achieved for 64 processors. The evaluation of our work distribution mechanism shows that the execution times can be sensibly reduced when appropriate parameters are chosen. Finally, when comparing Z-align with BLAST, it is clear that, in many cases, Z-align is able to produce alignments with higher score. | - |
Formato: dc.format | application/pdf | - |
Publicador: dc.publisher | Publishing With World Scientific | - |
Direitos: dc.rights | Acesso Aberto | - |
Direitos: dc.rights | International Journal of Foundations of Computer Science - Author Rights All articles published on WorldSciNet are protected by the copyright held by World Scientific Publishing Company (or its subsidiaries). You may share the published (printed or electronic) version provided it is for non-commercial use. Electronic version of an article published as International Journal of Foundations of Computer Science, Vol. 23, No. 2, 2012 p.407–429 DOI: 10.1142/S0129054112400205 © copyright World Scientific Publishing Company http://www.worldscientific.com/worldscinet/ijfcs. Fonte: http://www.worldscientific.com/page/authors/author-rights. Acesso em: 27 fev. 2013. | - |
Palavras-chave: dc.subject | Algoritmos genéticos | - |
Palavras-chave: dc.subject | Biologia computacional | - |
Palavras-chave: dc.subject | Programação dinâmica | - |
Palavras-chave: dc.subject | Bioengenharia - Ciência da computação | - |
Título: dc.title | Exact parallel alignment of megabase genomic sequences with tunable work distribution | - |
Aparece nas coleções: | Repositório Institucional – UNB |
O Portal eduCAPES é oferecido ao usuário, condicionado à aceitação dos termos, condições e avisos contidos aqui e sem modificações. A CAPES poderá modificar o conteúdo ou formato deste site ou acabar com a sua operação ou suas ferramentas a seu critério único e sem aviso prévio. Ao acessar este portal, você, usuário pessoa física ou jurídica, se declara compreender e aceitar as condições aqui estabelecidas, da seguinte forma: