Effectively addressing complex proteomic search spaces with peptide spectrum matching
| Autor(a) principal: | |
|---|---|
| Data de Publicação: | 2013 |
| Outros Autores: | , , , , , , , , , |
| Tipo de documento: | Artigo |
| Idioma: | por |
| Título da fonte: | Repositório Institucional da FIOCRUZ (ARCA) |
| Texto Completo: | https://www.arca.fiocruz.br/handle/icict/15605 |
Resumo: | Fundação de Amparo a Pesquisa do Rio de Janeiro (FAPERJ), Programa de Desenolvimento Tecnológico de Insumos para a Saúde (PDTIS), and Conselho Nacional de Pesquisa (CNPq). |
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Borges, DiogoPerez-Riverol, YassetNogueira, Fábio Cesar SousaDomont, Gilberto B.Noda, JesusLeprevost, Felipe da VeigaBesada, VladimirFrança, Felipe M. G.Barbosa, Valmir CarneiroSánchez, AnielCarvalho, Paulo Costa2016-09-05T13:59:55Z2016-09-05T13:59:55Z2013BORGES, Diogo et al. Effectively addressing complex proteomic search spaces with peptide spectrum matching. Bioinformatics, v. 29, n. 10, p. 1343-1344, 2013.1367-4803https://www.arca.fiocruz.br/handle/icict/1560510.1093/bioinformatics/btt106Fundação de Amparo a Pesquisa do Rio de Janeiro (FAPERJ), Programa de Desenolvimento Tecnológico de Insumos para a Saúde (PDTIS), and Conselho Nacional de Pesquisa (CNPq).Universidade Federal do Rio de Janeiro. Programa em Ciência da Computação e Engenharia de Sistemas, Rio de Janeiro, RJ, Brasil / Fundação Oswaldo Cruz. Instituto Carlos Chagas. Laboratório de Proteômica e Engenharia de Proteínas. Curitiba, PR, Brasil.Universidade Federal do Rio de Janeiro. Instituto de Química. Unidade de Proteômica. Rio de Janeiro, RJ, BrasilUniversidade Federal do Rio de Janeiro. Instituto de Química. Unidade de Proteômica. Rio de Janeiro, RJ, BrasilFundação Oswaldo Cruz. Instituto Carlos Chagas. Laboratório de Proteômica e Engenharia de Proteínas. Curitiba, PR, Brasil.Universidade Federal do Rio de Janeiro. Programa em Ciência da Computação e Engenharia de Sistemas, Rio de Janeiro, RJ, Brasil.Universidade Federal do Rio de Janeiro. Programa em Ciência da Computação e Engenharia de Sistemas, Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Carlos Chagas. Laboratório de Proteômica e Engenharia de Proteínas. Curitiba, PR, Brasil.Protein identification by mass spectrometry is commonly accomplished using a peptide sequence matching search algorithm, whose sensitivity varies inversely with the size of the sequence database and the number of post-translational modifications considered. We present the Spectrum Identification Machine, a peptide sequence matching tool that capitalizes on the high-intensity b1-fragment ion of tandem mass spectra of peptides coupled in solution with phenylisotiocyanate to confidently sequence the first amino acid and ultimately reduce the search space. We demonstrate that in complex search spaces, a gain of some 120% in sensitivity can be achieved.porEffectively addressing complex proteomic search spaces with peptide spectrum matchinginfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleProtein identificationPeptide sequence matching toolComputational BiologyProteínasAnálise de Sequência de ProteínaBiologia Computacionalinfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; charset=utf-83074https://www.arca.fiocruz.br/bitstream/icict/15605/1/license.txt0271fb68963c017aa933c7aff60379f4MD51ORIGINALEffectively addressing complex proteomic search spaces with.pdfEffectively addressing complex proteomic search spaces 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| dc.title.pt_BR.fl_str_mv |
Effectively addressing complex proteomic search spaces with peptide spectrum matching |
| title |
Effectively addressing complex proteomic search spaces with peptide spectrum matching |
| spellingShingle |
Effectively addressing complex proteomic search spaces with peptide spectrum matching Borges, Diogo Protein identification Peptide sequence matching tool Computational Biology Proteínas Análise de Sequência de Proteína Biologia Computacional |
| title_short |
Effectively addressing complex proteomic search spaces with peptide spectrum matching |
| title_full |
Effectively addressing complex proteomic search spaces with peptide spectrum matching |
| title_fullStr |
Effectively addressing complex proteomic search spaces with peptide spectrum matching |
| title_full_unstemmed |
Effectively addressing complex proteomic search spaces with peptide spectrum matching |
| title_sort |
Effectively addressing complex proteomic search spaces with peptide spectrum matching |
| author |
Borges, Diogo |
| author_facet |
Borges, Diogo Perez-Riverol, Yasset Nogueira, Fábio Cesar Sousa Domont, Gilberto B. Noda, Jesus Leprevost, Felipe da Veiga Besada, Vladimir França, Felipe M. G. Barbosa, Valmir Carneiro Sánchez, Aniel Carvalho, Paulo Costa |
| author_role |
author |
| author2 |
Perez-Riverol, Yasset Nogueira, Fábio Cesar Sousa Domont, Gilberto B. Noda, Jesus Leprevost, Felipe da Veiga Besada, Vladimir França, Felipe M. G. Barbosa, Valmir Carneiro Sánchez, Aniel Carvalho, Paulo Costa |
| author2_role |
author author author author author author author author author author |
| dc.contributor.author.fl_str_mv |
Borges, Diogo Perez-Riverol, Yasset Nogueira, Fábio Cesar Sousa Domont, Gilberto B. Noda, Jesus Leprevost, Felipe da Veiga Besada, Vladimir França, Felipe M. G. Barbosa, Valmir Carneiro Sánchez, Aniel Carvalho, Paulo Costa |
| dc.subject.en.pt_BR.fl_str_mv |
Protein identification Peptide sequence matching tool |
| topic |
Protein identification Peptide sequence matching tool Computational Biology Proteínas Análise de Sequência de Proteína Biologia Computacional |
| dc.subject.en.En.fl_str_mv |
Computational Biology |
| dc.subject.decs.pt_BR.fl_str_mv |
Proteínas Análise de Sequência de Proteína Biologia Computacional |
| description |
Fundação de Amparo a Pesquisa do Rio de Janeiro (FAPERJ), Programa de Desenolvimento Tecnológico de Insumos para a Saúde (PDTIS), and Conselho Nacional de Pesquisa (CNPq). |
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2013 |
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2013 |
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2016-09-05T13:59:55Z |
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2016-09-05T13:59:55Z |
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info:eu-repo/semantics/publishedVersion |
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info:eu-repo/semantics/article |
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article |
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BORGES, Diogo et al. Effectively addressing complex proteomic search spaces with peptide spectrum matching. Bioinformatics, v. 29, n. 10, p. 1343-1344, 2013. |
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https://www.arca.fiocruz.br/handle/icict/15605 |
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1367-4803 |
| dc.identifier.doi.pt_BR.fl_str_mv |
10.1093/bioinformatics/btt106 |
| identifier_str_mv |
BORGES, Diogo et al. Effectively addressing complex proteomic search spaces with peptide spectrum matching. Bioinformatics, v. 29, n. 10, p. 1343-1344, 2013. 1367-4803 10.1093/bioinformatics/btt106 |
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