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SWATH-MS Protocols in Human Diseases

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Shotgun Proteomics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2259))

Abstract

Identification of molecular biomarkers for human diseases is one of the most important disciplines in translational science as it helps to elucidate their origin and early progression. Thus, it is a key factor in better diagnosis, prognosis, and treatment. Proteomics can help to solve the problem of sample complexity when the most common primary sample specimens were analyzed: organic fluids of easy access. The latest developments in high-throughput and label-free quantitative proteomics (SWATH-MS), together with more advanced liquid chromatography, have enabled the analysis of large sample sets with the sensitivity and depth needed to succeed in this task. In this chapter, we show different sample processing methods (major protein depletion, digestion, etc.) and a micro LC-SWATH-MS protocol to identify/quantify several proteins in different types of samples (serum/plasma, saliva, urine, tears).

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Author notes

  1. Maria del Pilar Chantada-Vázquez and María García Vence contributed equally with all other contributors.

Authors and Affiliations

  1. Research Unit, Hospital Universitario Lucus Augusti (HULA), Servizo Galego de Saúde (SERGAS), Lugo, Spain

    Maria del Pilar Chantada-Vázquez & Cristina Núñez

  2. Proteomic Unit, Instituto de Investigaciones Sanitarias-IDIS, Complejo Hospitalario Universitario de Santiago de Compostela (CHUS), Santiago de Compostela, Spain

    María García Vence & Susana B. Bravo

  3. Sciex, Madrid, Spain

    Antonio Serna

Authors
  1. Maria del Pilar Chantada-Vázquez
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  2. María García Vence
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  3. Antonio Serna
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  4. Cristina Núñez
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  5. Susana B. Bravo
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Corresponding authors

Correspondence to Cristina Núñez or Susana B. Bravo .

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Editors and Affiliations

  1. Department of Food Technology, Institute of Marine Research (IIM), Spanish National Research Council (CSIC), Vigo, Spain

    Mónica Carrera

  2. Department of Food Technology, Institute of Marine Research (IIM), Spanish National Research Council (CSIC), Vigo, Spain

    Jesús Mateos

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Chantada-Vázquez, M.d.P., García Vence, M., Serna, A., Núñez, C., Bravo, S.B. (2021). SWATH-MS Protocols in Human Diseases. In: Carrera, M., Mateos, J. (eds) Shotgun Proteomics. Methods in Molecular Biology, vol 2259. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1178-4_7

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  • DOI: https://doi.org/10.1007/978-1-0716-1178-4_7

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