Overview of services
Consultation on experimental design
- Arrange an intake meeting with Jeroen Demmers
Sample preparation
- Extraction of proteins from tissue, cell lysates, body fluids, IP-ed proteins, …
- Protein digestion (various proteases), also for top-down and middle-down protein analysis
- Complete workflow for PTM enrichment
Mass spectrometry
- Orbitrap (Lumos Tribrid, Fusion Tribrid, Q Exactive Plus, XL ETD)
- (Q-ToF)
all in nanoflow LC configuration – see Equipment for details
Protein analysis
- Protein identification
- Characterization of post-translational modifications
- Quantitative proteomics: LFQ, SILAC, TMT, 18O
- Targeted proteomics: MRM, PRM
- Data independent acquisition (DIA)
Data analysis and bioinformatics
- Software packages: Proteome Discoverer (Thermo), Mascot (MatrixScience), MaxQuant/Perseus (Cox/Mann lab), R, customized software
Data interpretation & sharing
- Description of proteomics workflow for Methods & Materials section
- Raw data deposition (if required)
