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New approach for segmentation and quantification of two-dimensional gel electrophoresis images

2011-02Journal article Open access
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dc.contributor.authorDos Anjos, António
dc.contributor.authorMoller, Anders L. B.
dc.contributor.authorErsboll, Bjarne K.
dc.contributor.authorFinnie, Christine
dc.contributor.authorShahbazkia, Hamid R.
dc.date.accessioned2018-12-07T14:53:00Z
dc.date.available2018-12-07T14:53:00Z
dc.date.issued2011-02
dc.description.abstractMotivation: Detection of protein spots in two-dimensional gel electrophoresis images (2-DE) is a very complex task and current approaches addressing this problem still suffer from significant shortcomings. When quantifying a spot, most of the current software applications include a lot of background due to poor segmentation. Other software applications use a fixed window for this task, resulting in omission of part of the protein spot, or including background in the quantification. The approach presented here for the segmentation and quantification of 2-DE aims to minimize these problems. Results: Five sections from different gels are used to test the performance of the presented method concerning the detection of protein spots, and three gel sections are used to test the quantification of sixty protein spots. Comparisons with a state-of-the-art commercial software and an academic state-of-the-art approach are presented. It is shown that the proposed approach for segmentation and quantification of 2-DE images can compete with the available commercial and academic software packages.
dc.description.sponsorshipPortuguese Foundation for Science and Technology [SFRH/BD/19233/2004]; Danish Research Council for Natural Sciences (FTP)
dc.description.versioninfo:eu-repo/semantics/publishedVersion
dc.identifier.doi10.1093/bioinformatics/btq666
dc.identifier.issn1367-4803
dc.identifier.urihttp://hdl.handle.net/10400.1/11306
dc.language.isoeng
dc.peerreviewedyes
dc.publisherOxford University Press
dc.relationTRATAMENTO E PROCESSAMENTO AUTOMÁTICO DE IMAGENS BIDIMENSIONAIS DE MANCHAS DE ANÁLISE DE EXPRESSÃO ÓMICA
dc.rights.urihttp://creativecommons.org/licenses/4.0/
dc.subjectFunctional domain composition
dc.subjectSupport vector machines
dc.subjectAnalysis software
dc.subjectEnzyme-kinetics
dc.subjectProtein spots
dc.subjectPrediction
dc.subjectSystems
dc.subjectSteady
dc.titleNew approach for segmentation and quantification of two-dimensional gel electrophoresis images
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleTRATAMENTO E PROCESSAMENTO AUTOMÁTICO DE IMAGENS BIDIMENSIONAIS DE MANCHAS DE ANÁLISE DE EXPRESSÃO ÓMICA
oaire.awardURIinfo:eu-repo/grantAgreement/FCT//SFRH%2FBD%2F19233%2F2004/PT
oaire.citation.endPage375
oaire.citation.issue3
oaire.citation.startPage368
oaire.citation.titleBioinformatics
oaire.citation.volume27
person.familyNameAnjos
person.familyNameErsbøll
person.familyNameFinnie
person.familyNameShahbazkia
person.givenNameAntónio
person.givenNameBjarne Kjær
person.givenNameChristine
person.givenNameHamid Reza
person.identifier.ciencia-id2D11-C8C8-D8EA
person.identifier.ciencia-id5D12-F388-568E
person.identifier.orcid0000-0001-6521-8930
person.identifier.orcid0000-0003-1262-7890
person.identifier.orcid0000-0003-0657-5174
person.identifier.orcid0000-0002-5661-0612
person.identifier.ridM-7604-2013
person.identifier.scopus-author-id25638237700
person.identifier.scopus-author-id22735637800
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.nameFundação para a Ciência e a Tecnologia
rcaap.rightsopenAccess
rcaap.typearticle
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relation.isAuthorOfPublication005a1ed6-501c-4a06-a782-960a4cec5405
relation.isAuthorOfPublication187456ef-6033-4204-8349-3191cc987364
relation.isAuthorOfPublication11ed60f1-defe-4034-9203-633a116cf217
relation.isAuthorOfPublication.latestForDiscoveryc525cee7-e184-4154-ab9a-23270970ca86
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