The facility provides a complete platform for the identification and quantification of proteins using mass spectrometry. We are equipped with state-of-the-art chromatography systems and mass spectrometers that enable multiple MS and LC-MS/MS experiments:

• Orbitrap Fusion Lumos Tribrid mass spectrometer (high resolution ESI mass spectrometer – Thermo) coupled to nanoAcquity UPLC
• Q-Exactive HFX mass spectrometer (high resolution ESI mass spectrometer - Thermo) coupled to MClass nanoAcquity UPLC (Waters)
• 1260 Infinity (HPLC) equipped with fraction collector for offline fractionation by high pH reverse phase chromatography (Agilent)
• Sample preparation robot (in-gel digestion of large sample sets)

In addition, the facility provides a wide-range of software and bioinformatics tools for data analysis and interpretation:

• Spectronaut (Biognosys AG)
• SpectroDive (Biognosys AG)
• SpectroMine (Biognosys AG)
• Mascot Server (Matrix Science)
• Peaks Studio (Bioinformatics Inc)
• Proteome Discoverer (Thermo)
• MaxQuant (Freeware, Max Planck Institute, Martinsried)
• Scaffold (Proteome Science)
• Isobarquant (Cellzome AG)
• Multiple in house written procedures based on R\Bioconductor