SLiMSearch 2.0 : biological context for short linear motifs in proteins

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Title: SLiMSearch 2.0 : biological context for short linear motifs in proteins
Authors: Davey, Norman E.
Haslam, Niall J.
Shields, Denis C.
Edwards, Richard J.
Permanent link: http://hdl.handle.net/10197/3180
Date: 26-May-2011
Abstract: Short, linear motifs (SLiMs) play a critical role in many biological processes. The SLiMSearch 2.0 (Short, Linear Motif Search) web server allows researchers to identify occurrences of a user-defined SLiM in a proteome, using conservation and protein disorder context statistics to rank occurrences. User-friendly output and visualizations of motif context allow the user to quickly gain insight into the validity of a putatively functional motif occurrence. For each motif occurrence, overlapping UniProt features and annotated SLiMs are displayed. Visualization also includes annotated multiple sequence alignments surrounding each occurrence, showing conservation and protein disorder statistics in addition to known and predicted SLiMs, protein domains and known post-translational modifications. In addition, enrichment of Gene Ontology terms and protein interaction partners are provided as indicators of possible motif function. All web server results are available for download. Users can search motifs against the human proteome or a subset thereof defined by Uniprot accession numbers or GO term. The SLiMSearch server is available at: http://bioware.ucd.ie/slimsearch2.html.
Funding Details: Science Foundation Ireland
European Research Council
Other funder
Type of material: Journal Article
Publisher: Oxford University Press
Copyright (published version): The Author(s) 2011
Keywords: Linear motif;Protein protein interactions;Minimotifs
Subject LCSH: Protein-protein interactions
Proteins--Research--Data processing
Proteins--Research--Technological innovations
DOI: 10.1093/nar/gkr402
Language: en
Status of Item: Peer reviewed
Appears in Collections:Conway Institute Research Collection
CASL Research Collection
Medicine Research Collection

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