title: In-depth characterization of the cerebrospinal fluid (CSF) proteome displayed through the CSF proteome resource (CSF-PR).
abstract: In this study, the human cerebrospinal fluid (CSF) proteome was mapped using three different strategies prior to Orbitrap LC-MS/MS analysis: SDS-PAGE and mixed mode reversed phase-anion exchange for mapping the global CSF proteome, and hydrazide-based glycopeptide capture for mapping glycopeptides. A maximal protein set of 3081 proteins (28,811 peptide sequences) was identified, of which 520 were identified as glycoproteins from the glycopeptide enrichment strategy, including 1121 glycopeptides and their glycosylation sites. To our knowledge, this is the largest number of identified proteins and glycopeptides reported for CSF, including 417 glycosylation sites not previously reported. From parallel plasma samples, we identified 1050 proteins (9739 peptide sequences). An overlap of 877 proteins was found between the two body fluids, whereas 2204 proteins were identified only in CSF and 173 only in plasma. All mapping results are freely available via the new CSF Proteome Resource (http://probe.uib.no/csf-pr), which can be used to navigate the CSF proteome and help guide the selection of signature peptides in targeted quantitative proteomics.
authors.affiliation: From the ‡Proteomics Unit (PROBE), 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: From the ‡Proteomics Unit (PROBE), Department of Biomedicine, University of Bergen, Bergen, Norway;
authors.forename: Heidrun
authors.initials: H
authors.lastname: Vethe
authors.affiliation: From the ‡Proteomics Unit (PROBE), Department of Biomedicine, University of Bergen, Bergen, Norway; ¶Department of Informatics, University of Bergen, Bergen, Norway;
authors.forename: Yehia
authors.initials: Y
authors.lastname: Farag
authors.affiliation: From the ‡Proteomics Unit (PROBE), Department of Biomedicine, University of Bergen, Bergen, Norway; §KG Jebsen Centre for Multiple Sclerosis Research, Department of Clinical Medicine, University of Bergen, Bergen, Norway; ‖Department of Clinical Medicine, University of Bergen, Bergen, Norway;
authors.forename: Eystein
authors.initials: E
authors.lastname: Oveland
authors.affiliation: From the ‡Proteomics Unit (PROBE), Department of Biomedicine, University of Bergen, Bergen, Norway;
authors.forename: Hilde
authors.initials: H
authors.lastname: Garberg
authors.affiliation: From the ‡Proteomics Unit (PROBE), Department of Biomedicine, University of Bergen, Bergen, Norway; **Surgical Clinic, Haukeland University Hospital, Bergen, Norway;
authors.forename: Magnus
authors.initials: M
authors.lastname: Berle
authors.affiliation: §KG Jebsen Centre for Multiple Sclerosis Research, Department of Clinical Medicine, University of Bergen, Bergen, Norway; ‡‡Norwegian Multiple Sclerosis Registry and Biobank, Haukeland University Hospital, Bergen, Norway;
authors.forename: Kjell-Morten
authors.initials: KM
authors.lastname: Myhr
authors.affiliation: From the ‡Proteomics Unit (PROBE), 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: Jill A
authors.initials: JA
authors.lastname: Opsahl
authors.affiliation: From the ‡Proteomics Unit (PROBE), Department of Biomedicine, University of Bergen, Bergen, Norway;
authors.forename: Harald
authors.initials: H
authors.lastname: Barsnes
authors.affiliation: From the ‡Proteomics Unit (PROBE), 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. frode.berven@biomed.uib.no.
authors.forename: Frode S
authors.initials: FS
authors.lastname: Berven
mesh_terms: D002555:Cerebrospinal Fluid / Q000378:metabolism*; D002853:Chromatography, Liquid; D004591:Electrophoresis, Polyacrylamide Gel; D020869:Gene Expression Profiling; D006020:Glycopeptides / Q000032:analysis* / Q000737:chemistry / Q000302:isolation & purification; D006023:Glycoproteins / Q000032:analysis* / Q000737:chemistry / Q000302:isolation & purification; D064368:Healthy Volunteers; D006801:Humans; D020543:Proteome / Q000032:analysis*; D040901:Proteomics / Q000379:methods; D053719:Tandem Mass Spectrometry
chemical_list: D006020:Glycopeptides; D006023:Glycoproteins; D020543:Proteome