Mass spectrometry based equipment for proteomics analyses

DTU Biosustain is now looking into purchasing equipment for proteomics analyses. The analytics department at DTU Biosustain is providing routine and research-based protemics services to the entire center by means of liquid chromatography-mass spectrometry (which is considered the gold standard technique for such analyses). Proteomics is a tool used by most research groups at DTU Biosustain, and thus, it is considered a fundamental service, which is of high priori-ty to the center. Based on this, DTU Biosustain now wishes to purchase a new equipment to be able to reliably continue the proteomics analyses and to provide the center with the data, which is needed for the research to be performed. The new equipment must be able to: • Perform high-quality proteomics analyses utilizing a built-in option for sample preparation and including the software needed for complex proteomics data processing. • Synchronize the quadrupole with the ion mobility (IMS) elution time to allow for a high MS/MS acquisition speed, leading to an increased fragmentation depth. In addition, the system must include algorithms for intelligent targeting of low-level precursors, as this will enable a very high data coverage also from complex digested protein mixtures • Show a reproducibility of Collisional Cross Section (CCS) value determination <0.5 %RSD, as this will ensure high data reproducibility • Provide pre-defined methods for DDA, DIA and PRM where both m/z and ion mobility are used for selectivity, as well as dual-TIMS technology allowing for PASEF, dia-PASEF and prm-PASEF acquisition methods. These features provide a nearly 100% duty cycle, which is perfectly suited for the nanoflow LC-MS analysis of enzymatically digested protein mix-tures usually analysed within the analytics department at DTU Biosustain. • Allow for the integration of various LC vendors into the instrument control software, as the analytics department at DTU Biosustain has LC systems from different vendors available for these analyses.