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Essential Features and Use Cases of the Cerebrospinal Fluid Proteome Resource (CSF-PR)

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Cerebrospinal Fluid (CSF) Proteomics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2044))

Abstract

Every year, a large number of published studies present biomarkers for various neurological disorders. Many of these studies are based on mass spectrometry proteomics data and describe comparison of the abundance of proteins in cerebrospinal fluid between two or more disease groups. As the number of such studies is growing, it is no longer straightforward to obtain an overview of which specific proteins are increased or decreased between the numerous relevant diseases and their many subcategories, or to see the larger picture or trends between related diseases. To alleviate this situation, we therefore mined the literature for mass spectrometry–based proteomics studies including quantitative protein data from cerebrospinal fluid of patients with multiple sclerosis, Alzheimer’s disease, and Parkinson’s disease and organized the extracted data in the Cerebrospinal Fluid Proteome Resource (CSF-PR). CSF-PR is freely available online at http://probe.uib.no/csf-pr, is highly interactive, and allows for easy navigation, visualization, and export of the published scientific data. This chapter will guide the user through some of the most important features of the tool and show examples of the suggested use cases.

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Acknowledgements

A.G. and H.B. are supported by the Research Council of Norway. H.B., Y.F., and R.R.L. are supported by Bergen Research Foundation. F.B. is supported by the Western Norway Regional Health Authority.

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Authors and Affiliations

  1. Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway

    Astrid Guldbrandsen, Yehia Mokhtar Farag, Ragnhild Reehorst Lereim, Frode S. Berven & Harald Barsnes

  2. Computational Biology Unit, Department of Informatics, University of Bergen, Bergen, Norway

    Astrid Guldbrandsen, Yehia Mokhtar Farag, Ragnhild Reehorst Lereim & Harald Barsnes

Authors
  1. Astrid Guldbrandsen
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  2. Yehia Mokhtar Farag
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  3. Ragnhild Reehorst Lereim
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  4. Frode S. Berven
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  5. Harald Barsnes
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Corresponding author

Correspondence to Frode S. Berven .

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Editors and Affiliations

  1. Proteomics Unit, Clinical Neuroproteomics Laboratory, Navarrabiomed, Complejo Hospitalario de Navarra (CHN), Universidad Pública de Navarra (UPNA), IdiSNA, Proteored-ISCIII, Pamplona, Spain

    Enrique Santamaría

  2. Proteomics Unit, Clinical Neuroproteomics Laboratory, Navarrabiomed, Complejo Hospitalario de Navarra (CHN), Universidad Pública de Navarra (UPNA), IdiSNA, Proteored-ISCIII, Pamplona, Spain

    Joaquín Fernández-Irigoyen

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Guldbrandsen, A., Farag, Y.M., Lereim, R.R., Berven, F.S., Barsnes, H. (2019). Essential Features and Use Cases of the Cerebrospinal Fluid Proteome Resource (CSF-PR). In: Santamaría, E., Fernández-Irigoyen, J. (eds) Cerebrospinal Fluid (CSF) Proteomics. Methods in Molecular Biology, vol 2044. Humana, New York, NY. https://doi.org/10.1007/978-1-4939-9706-0_25

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  • DOI: https://doi.org/10.1007/978-1-4939-9706-0_25

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-4939-9705-3

  • Online ISBN: 978-1-4939-9706-0

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