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dc.contributor.author
Palopoli, Nicolás
dc.contributor.author
Lythgow, Kieren T.
dc.contributor.author
Edwards, Richard J.
dc.date.available
2020-03-04T18:36:32Z
dc.date.issued
2015-03
dc.identifier.citation
Palopoli, Nicolás; Lythgow, Kieren T.; Edwards, Richard J.; QSLiM Finder: Improved short linear motif prediction using specific query protein data; Oxford University Press; Bioinformatics (Oxford, England); 31; 14; 3-2015; 2284-2293
dc.identifier.issn
1367-4803
dc.identifier.uri
http://hdl.handle.net/11336/98772
dc.description.abstract
Motivation: The sensitivity of de novo short linear motif (SLiM) prediction is limited by the number of patterns (the motif space) being assessed for enrichment. QSLiMFinder uses specific query protein information to restrict the motif space and thereby increase the sensitivity and specificity of predictions. Results: QSLiMFinder was extensively benchmarked using known SLiM-containing proteins and simulated protein interaction datasets of real human proteins. Exploiting prior knowledge of a query protein likely to be involved in a SLiM-mediated interaction increased the proportion of true positives correctly returned and reduced the proportion of datasets returning a false positive prediction. The biggest improvement was seen if a short region of the query protein flanking the interaction site was known.
dc.format
application/pdf
dc.language.iso
eng
dc.publisher
Oxford University Press
dc.rights
info:eu-repo/semantics/openAccess
dc.rights.uri
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.subject
PROTEIN-PROTEIN INTERACTION
dc.subject
SHORT LINEAR MOTIF
dc.subject
SLIM
dc.subject
BENCHMARK
dc.subject.classification
Ciencias de la Información y Bioinformática
dc.subject.classification
Ciencias de la Computación e Información
dc.subject.classification
CIENCIAS NATURALES Y EXACTAS
dc.title
QSLiM Finder: Improved short linear motif prediction using specific query protein data
dc.type
info:eu-repo/semantics/article
dc.type
info:ar-repo/semantics/artículo
dc.type
info:eu-repo/semantics/publishedVersion
dc.date.updated
2020-03-03T15:08:58Z
dc.journal.volume
31
dc.journal.number
14
dc.journal.pagination
2284-2293
dc.journal.pais
Reino Unido
dc.journal.ciudad
Oxford
dc.description.fil
Fil: Palopoli, Nicolás. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. University of Southampton; Reino Unido
dc.description.fil
Fil: Lythgow, Kieren T.. University of Southampton; Reino Unido. Public Health England; Reino Unido
dc.description.fil
Fil: Edwards, Richard J.. University of New South Wales; Australia. University of Southampton; Reino Unido
dc.journal.title
Bioinformatics (Oxford, England)
dc.relation.alternativeid
info:eu-repo/semantics/altIdentifier/url/http://bioinformatics.oxfordjournals.org/content/early/2015/04/03/bioinformatics.btv155
dc.relation.alternativeid
info:eu-repo/semantics/altIdentifier/doi/http://dx.doi.org/10.1093/bioinformatics/btv155
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