Name
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 predefined 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. |
Year | DOI | Venue |
|---|---|---|
2010 | 10.1007/978-3-642-16001-1 | PRIB |
Keywords | Field | DocType |
motif context,slimsearch server,short linear motif,linear motif,novel occurrence,user great control,case motif support,sequence context,putatively functional motif occurrence,predefined slims,python module,webserver result,evolutionary relationship,protein structure,protein motif,biological process | Human proteome project,Eukaryotic Linear Motif resource,Short linear motif,UniProt,Computer science,Artificial intelligence,Structural motif,Bioinformatics,Machine learning,Python (programming language),Web server,Multiple EM for Motif Elicitation | Conference |
Volume | ISSN | ISBN |
6282 | 0302-9743 | 3-642-16000-X |
Citations | PageRank | References |
2 | 0.39 | 20 |
Authors | ||
4 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Norman E. Davey | 1 | 228 | 16.61 |
| Niall J. Haslam | 2 | 73 | 4.91 |
| Denis C. Shields | 3 | 158 | 20.92 |
| Richard J. Edwards | 4 | 137 | 9.93 |