@inproceedings{424b55a3e1744e4bbbb136dfdcccd2ba,
title = "SLiMSearch: A webserver for finding novel occurrences of short linear motifs in proteins, incorporating sequence context",
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.",
keywords = "elm, minimotif, motif discovery, short linear motif",
author = "Davey, {Norman E.} and Haslam, {Niall J.} and Shields, {Denis C.} and Edwards, {Richard J.}",
note = "Funding Information: Acknowledgments. This work was supported by Science Foundation Ireland, the University of Southampton and a European Molecular Biology Laboratory, EMBL Interdisciplinary Postdoc (EIPOD) fellowship (to N.E.D.).; 5th IAPR International Conference on Pattern Recognition in Bioinformatics, PRIB 2010 ; Conference date: 22-09-2010 Through 24-09-2010",
year = "2010",
doi = "10.1007/978-3-642-16001-1_5",
language = "English",
isbn = "364216000X",
series = "Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)",
pages = "50--61",
booktitle = "Pattern Recognition in Bioinformatics - 5th IAPR International Conference, PRIB 2010, Proceedings",
}