Non-exhaustive list of services offered by the Proteome Platform. 
For other types of applications, please contact the person in charge of the platform : Caroline Tokarski.

SAMPLE PREPARATION FOR MASS SPECTROMETRY

• Electrophoretic or chromatographic separation of proteins/peptides (SDS-PAGE, 2D-PAGE, OffGel, GelFree, C18, C4, SEC, IEX, monolithic ...).
• Enrichment/depletion of proteins/peptides (sera analysis, plasmas, ...).
• Enrichment of peptide subspecies (phosphoproteomics, glycosylation, ...).
• Proteolysis adapted to the sample and to the analysis (in gel, in solution, multi-enzyme strategy, trace samples, ...).

PROTEIN/PEPTIDE ANALYSIS BY HIGH RESOLUTION MASS SPECTROMETRY

• Identification of proteins in complex mixtures.
• Protein characterization: molecular mass measurement, identification and localization of co/post-translational modifications (phosphorylation, glycosylation, ubiquitination...).
• De novo sequencing of proteins.
• Interactomics, protein complexes.
• Differential expression proteomics with labelling (SILAC, TMT) or without labelling (Label-free).

BIOINFORMATICS AND DATA PROCESSING

• Reprocessing of mass spectrometry data for protein identification, characterization and quantification using dedicated software.
• Partnership with the Bordeaux Bioinformatics Centre for the analysis and integration of omics data: statistical validation, enrichment in terms of GO, tools for visualization and interpretation of results, functional annotation of proteomes.

R&D EXPERTISE

• Structural analysis of proteins by isotope exchange or cross-linking: conformational study, protein-protein interactions, epitope mapping, etc.
• Imaging by MALDI-Orbitrap mass spectrometry: identification and localization of lipids, metabolites, peptides/proteins (in situ digestion)
• Analysis of lipid constituents: screening, identification of lipid structures, differential study, quantification.
• Top-down proteomic analysis: identification of intact proteins and their post-translational or chemical modifications, identification of protein variants, identification of in situ cleaved protein forms.
• Glycoprotein/glycopeptide analysis: identification and localization of N- and O-glycosylations.
• Trace and ultra trace analysis in the field of cultural heritage: identification of proteins, lipids and sugars, chemical/post-translational modifications, biological species of origin from different types of ancient materials.