Proteins are essential building blocks of living organisms and main components of nearly all metabolic pathways. The proteome of a cell is a highly dynamic entity and systematic protein profiling is important to study cellular regulations under regular and disease conditions. The CECAD Proteomics Core Facility applies state-of-the-art methods of mass spectrometry to identify and quantify protein expression profiles and changes in post-translational modifications (PTMs) of peptides with maximum sensitivity. Shotgun proteomics is performed by data-dependent (DDA) and data-independent acquisition (DIA) and applied to in depth-PTM screening, and protein-protein interaction studies. In addition, parallel reaction monitoring (PRM) assays are applied to target selected proteins with the highest sensitivity and accuracy. For large scale projects, such as clinical or spatial proteomics, automized high-throughput analysis approaches are available.

Samples are analyzed based on specific needs of the clients as determined in preliminary discussions. Users register projects online and deliver prepared samples to the facility. After measurement, protein intensities are determined by powerful software tools and the facility performs basic statistical data evaluation as well as post-analysis consultation. In addition, the facility has implemented data management pipelines starting from initial sample registration and sample tracking towards data annotation, archiving/retrieval of acquired data at RRZK, and publication support, such as ProteomeXchange uploads.

As the field of proteomics is a dynamic field and the facility is constantly involved in establishing new methods to keep up with recent developments. Our aim is to deliver constant high-quality data for all projects while keeping open to emerging techniques and requests by our users. 

For more info, visit the Proteomics Lab website following the link below.