Journal of Proteomics & Bioinformatics
Open Access

Matthew E. Cockman

Publications

• Research Article
  ModLS: Post-Translational Modification Localization Scoring with Automatic Specificity Expansion
  Author(s): David C. Trudgian, Rachelle Singleton, Matthew E. Cockman, Peter. J. Ratcliffe and Benedikt M. Kessler David C. Trudgian, Rachelle Singleton, Matthew E. Cockman, Peter. J. Ratcliffe and Benedikt M. Kessler
  
  Probability-based localisation scoring of fragment mass-spectrum phosphorylation site identifications has become common practice to confirm search engine modification assignments, and indicate the degree of certainty with which they are defined. Localisation of modifications other than phosphorylation is also required but is less commonly supported by current tools. These other modifications, such as hydroxylation, may have broad aminoacid specificity, and can be misassigned when the correct specificity is not considered in an MS database search. In addition, localisation software is often specific to a particular MS/MS search engine, and cannot be used to localise modifications identified by multiple search engines. ModLS, a new tool within our freely-available Central Proteomics Facilities Pipeline (CPFP), applies a localisation scoring method to arbitrary post-translational modific.. View More»
  DOI: 10.4172/jpb.1000251

  Abstract PDF

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