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A Systematic Analysis Workflow for High-Density Customized Protein Microarrays in Biomarker Screening

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Functional Proteomics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1871))

Abstract

High-density protein microarrays constitute a promising high-throughput platform for the characterization of protein expression patterns, biomarker discovery, and validation. Different types of protein microarrays have been described according to several features (such as content, format, and detection system) presenting advantages and disadvantages which are relevant for the specific application and purposes. Therefore, an experimental design is key for any screening based on protein microarrays assays; in fact, the data analysis strategy is directly related to the experimental design, type of protein microarray and consequently the final outcome, the data and results interpretation, is also directly linked. Here, it is proposed a systematic workflow for biomarker discovery based on tailor-made protein microarrays platforms which obtain comprehensively info for the functional protein characterization in high-throughput format.

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Acknowledgments

We gratefully acknowledge financial support from the Spanish Health Institute Carlos III (ISCIII) for the grants: FIS PI14/01538, FIS PI17/01930, and CB16/12/00400. We also acknowledge Fondos FEDER (EU) and Junta Castilla-León (grant SA198A12-2). Fundación Solórzano FS38/2017. The Proteomics Unit belongs to ProteoRed, PRB3-ISCIII, supported by grant PT17/0019/0023, of the PE I + D + I 2017-2020, funded by ISCIII and FEDER.

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Author notes

  1. Rodrigo García-Valiente and Jonatan Fernández-García contributed equally to this work.

Authors and Affiliations

  1. Proteomics Unit, Cancer Research Centre (IBMCC/CSIC/USAL/IBSAL), Salamanca, Spain

    Rodrigo García-Valiente, Jonatan Fernández-García, Javier Carabias-Sánchez, Alicia Landeira-Viñuela, Rafael Góngora, María Gonzalez-Gonzalez & Manuel Fuentes

  2. Department of Medicine and Cytometry General Service-NUCLEUS, Cancer Research Centre (IBMCC/CSIC/USAL/IBSAL), Salamanca, Spain

    Alicia Landeira-Viñuela, Rafael Góngora, María Gonzalez-Gonzalez & Manuel Fuentes

Authors
  1. Rodrigo García-Valiente
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  2. Jonatan Fernández-García
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  3. Javier Carabias-Sánchez
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  4. Alicia Landeira-Viñuela
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  5. Rafael Góngora
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  6. María Gonzalez-Gonzalez
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  7. Manuel Fuentes
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Corresponding author

Correspondence to María Gonzalez-Gonzalez .

Editor information

Editors and Affiliations

  1. Array Bridge Inc., St. Louis, MO, USA

    Xing Wang

  2. Biotech Support Group LLC, Monmouth Junction, NJ, USA

    Matthew Kuruc

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García-Valiente, R. et al. (2019). A Systematic Analysis Workflow for High-Density Customized Protein Microarrays in Biomarker Screening. In: Wang, X., Kuruc, M. (eds) Functional Proteomics. Methods in Molecular Biology, vol 1871. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-8814-3_7

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  • DOI: https://doi.org/10.1007/978-1-4939-8814-3_7

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-8813-6

  • Online ISBN: 978-1-4939-8814-3

  • eBook Packages: Springer Protocols

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