Training

This joint EBI-Wellcome Trust workshop provides hands-on training in the use of public databases for peptide analysis, annotation of subsequent protein lists using these resources, incorporation of information from molecular interaction and pathway databases, and the use of protein 3D-structure data in proteomics experiments. The workshop is aimed at research scientists with a minimum of a degree in a biological discipline, including laboratory and clinical staff as well as specialists in related fields. The practical elements of the course will take raw data from a proteomics experiment and analyse it in order to go from MS spectra, identify peptides and finally to lists of protein identifiers that can be analysed further using a wide range of resources. The aim is to provide attendees with the practical bioinformatics knowledge they need to go back to the lab and process their own data (including large datasets) when collected.
Acceptance to the course will be subject to a selection process.

Topics include

• Mass Spectroscopy Basics and MS Search Engines
• Sequence databases and their use
• Gene Ontology as a data classification tool
• Using ontologies to annotate data
• Standardising proteomics data
• PRIDE - The Proteomics Identification Database
• The IntAct molecular interactions database
• Reactome - placing proteins in pathways
• InterPro - identifying possible functions
• Protein 3-D structure data and proteomics
• Proteomics data and services integration

Guest Speakers

• Dr. Kathryn Lilley - Cambridge Centre for Proteomics, UK
• Prof. Dr. Kris Gevaert - VIB Department of Medical Protein Research, UGent, Belgium