Glycoproteomics and MS Proteomics

The Proteomics Core Facility (PCF) at the University of Gothenburg provides access to expertise and instrumentation for advanced glycosylation, phosphorylation, protein quantification and many other proteomic analyses.

Analogous to proteomics, glycoproteomics is based on advanced mass spectrometry technologies that have evolved as the method of choice for global or directed analyses of glycoproteins, proteoglycans, glycosphingolipids etc in biological tissue. The concept is to characterize the glycans and/or their exact attachment sites on specific peptides, identified by their unique amino acid sequences. To accomplish this a series of enrichment strategies, ionization techniques as well as bioinformatic tools are available in the research support.

PCF has broad experience in the preparation and analysis of various biological materials such as tissues, cells, plasma, CSF, urine, subcellular fractions such as exosomes, proteins derived from affinity-based (immunoprecipitation) methods, BioID, expressed proteins etc. Using tandem-mass tags (TMT), samples can be analysed in parallel in a quantitative proteomics study. We apply extensive offline fractionation before LC-MS analysis accomplishing deep proteome coverage.

Clinical proteomics studies promoting personalised and precision medicine with large sample cohorts are performed using data-independent acquisition (DIA) and ion mobility MS in a high-throughput manner with very good data quality of the analysed proteome. Samples can be continuously collected, and studies can be going on over a long time.

Support and applications

• Protein identification
• Quantitative or targeted proteomics
• Interaction proteomics after affinity-based approaches
• High-throughput data-independent proteomics of large cohorts
• Global and relative quantification and identification of glycopeptides
• Structural characterization of N- and O-linked glycopeptides
• Screening of released N-linked and O-linked oligosaccharides and liberated glycans from glycolipids for comparative glycomics.
• Characterization of N-linked and O-linked oligosaccharides and liberated glycans from glycolipids using exoglycosidases
• Identification and relative quantification of phosphopeptides
• Custom-made biological mass spectrometry

Equipment

Mass Spectrometers

• Bruker timsTOF SCP
• Bruker timsTOF HT
• Thermo Orbitrap Eclipse Tribrid
• Thermo Orbitrap Fusion Lumos Tribrid
• Thermo Orbitrap Fusion Tribrid
• Thermo Orbitrap Exploris 480
• Thermo QExactiveHF
• Thermo LTQ Orbitrap
• Thermo QExactive

Peptide Separation

• online: Thermo Easy nLC1200 systems
• online: Evosep One nLC systems
• online: Thermo Vanquish HPLC
• offline: high pH UPLC fractionation: Thermo Dionex Ultimate 3000

Using the Unit

When you are planning a project for analyses at PCF, please contact us via pcf@gu.se. We are happy recommending suitable methodology and study design in order to create results of high quality and scientific impact. After filling in our sample submission form you are welcome to deliver your samples to our facility.