UNIT 13.15 Biological Sequence Motif Discovery Using motif-x

Abstract

The Web-based motif-x program provides a simple interface to extract statistically significant motifs from large data sets, such as MS/MS post-translational modification data and groups of proteins that share a common biological function. Users upload data files and download results using common Web browsers on essentially any Web-compatible computer. Once submitted, data analyses are performed rapidly on an associated high-speed computer cluster and they produce both syntactic and image-based motif results and statistics. The protocols presented demonstrate the use of motif-x in three common user scenarios. Curr. Protoc. Bioinform. 35:13.15.1-13.15.24. © 2011 by John Wiley & Sons, Inc.