title: A Simple Workflow for Large Scale Shotgun Glycoproteomics.
abstract: Targeting subproteomes is a good strategy to decrease the complexity of a sample, for example in body fluid biomarker studies. Glycoproteins are proteins with carbohydrates of varying size and structure attached to the polypeptide chain, and it has been shown that glycosylation plays essential roles in several vital cellular processes, making glycosylation a particularly interesting field of study. Here, we describe a method for the enrichment of glycosylated peptides from trypsin digested proteins in human cerebrospinal fluid. We also describe how to perform the data analysis on the mass spectrometry data for such samples, focusing on site-specific identification of glycosylation sites, using user friendly open source software.
authors.affiliation: Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway.|KG Jebsen Centre for Multiple Sclerosis Research, Department of Clinical Medicine, University of Bergen, Bergen, Norway.
authors.forename: Astrid
authors.initials: A
authors.lastname: Guldbrandsen
authors.affiliation: Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway.|KG Jebsen Center for Diabetes Research, Department of Clinical Sciences, University of Bergen, Bergen, Norway.
authors.forename: Harald
authors.initials: H
authors.lastname: Barsnes
authors.affiliation: Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway.|KG Jebsen Centre for Multiple Sclerosis Research, Department of Clinical Medicine, University of Bergen, Bergen, Norway.
authors.forename: Ann Cathrine
authors.initials: AC
authors.lastname: Kroksveen
authors.affiliation: Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway.|KG Jebsen Centre for Multiple Sclerosis Research, Department of Clinical Medicine, University of Bergen, Bergen, Norway.|Norwegian Multiple Sclerosis Competence Centre, Department of Neurology, Haukeland University Hospital, Bergen, Norway.
authors.forename: Frode S
authors.initials: FS
authors.lastname: Berven
authors.affiliation: Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway. marc.vaudel@uib.no.
authors.forename: Marc
authors.initials: M
authors.lastname: Vaudel
mesh_terms: D019295:Computational Biology / Q000379:methods*; D030562:Databases, Protein; D006023:Glycoproteins; D020543:Proteome; D040901:Proteomics / Q000379:methods*; D057188:Workflow
chemical_list: D006023:Glycoproteins; D020543:Proteome
keywords: Data interpretation; Enrichment; Glycoproteomics