SLiMSearch : a webserver for finding novel occurrences of short linear motifs in proteins, incorporating sequence context

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Title: SLiMSearch : a webserver for finding novel occurrences of short linear motifs in proteins, incorporating sequence context
Authors: Davey, Norman E.
Haslam, Niall J.
Shields, Denis C.
Edwards, Richard J.
Permanent link: http://hdl.handle.net/10197/2942
Date: 2010
Abstract: Short, linear motifs (SLiMs) play a critical role in many biological processes. The SLiMSearch (Short, Linear Motif Search) webserver is a flexible tool that enables researchers to identify novel occurrences of pre- defined SLiMs in sets of proteins. Numerous masking options give the user great control over the contextual information to be included in the analyses, including evolutionary filtering and protein structural disorder. User-friendly output and visualizations of motif context allow the user to quickly gain insight into the validity of a putatively functional motif occurrence. Users can search motifs against the human proteome, or submit their own datasets of UniProt proteins, in which case motif support within the dataset is statistically assessed for over- and under-representation, accounting for evolutionary relationships between input proteins. SLiMSearch is freely available as open source Python modules and all webserver results are available for download. The SLiMSearch server is available at: http://bioware.ucd.ie/slimsearch.html.
Funding Details: Science Foundation Ireland
European Research Council
Type of material: Conference Publication
Publisher: Springer
Copyright (published version): 2010 Springer-Verlag Berlin Heidelberg
Keywords: Motif discoveryShort linear motifProtein motifMinimotifElm
Subject LCSH: Protein-protein interactions
Proteins--Research--Data processing
Proteins--Research--Technological innovations
DOI: 10.1007/978-3-642-16001-1_5
Language: en
Status of Item: Peer reviewed
Is part of: Dijkstra, T. ... [et al.] (eds.). Pattern Recognition in Bioinformatics 5th IAPR International Conference, PRIB 2010, Nijmegen, The Netherlands, September 22-24, 2010. Proceedings. Lecture Notes in Bioinformatics. Vol. 6282.
Conference Details: Paper presented at the 5th IAPR International Conference, PRIB 2010, Nijmegen, The Netherlands, September 22-24, 2010
Appears in Collections:Conway Institute Research Collection
Clique Research Collection
CASL Research Collection

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