Biological sequence motif discovery using motif-x

Curr Protoc Bioinformatics. 2011 Sep;Chapter 13:Unit 13.15-24. doi: 10.1002/0471250953.bi1315s35.

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.

MeSH terms

  • Algorithms*
  • Amino Acid Motifs / genetics*
  • Amino Acid Sequence
  • Molecular Sequence Data
  • Protein Processing, Post-Translational / genetics*
  • Proteomics / methods*
  • Software*
  • Tandem Mass Spectrometry / methods