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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