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Mass Spectrometry Data Analysis in Proteomics pp 1–45Cite as

Introduction to Mass Spectrometry-Based Proteomics

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 1007))

Abstract

Mass spectrometry has been widely applied to study biomolecules and one rapidly developing field is the global analysis of proteins, proteomics. Understanding and handling mass spectrometry data is a multifaceted task that requires many decisions to be made to get the most comprehensive information from an experiment. Later chapters in this book deal in-depth with various aspects of the process and how different tools can be applied to the many analytical challenges. This introductory chapter is intended as a basic introduction to mass spectrometry (MS)-based proteomics to set the scene for newcomers and give pointers to reference material.

There are many applications of mass spectrometry in proteomics and each application is associated with some analytical choices, instrumental limitations and data processing steps that depend on the aim of the study and means of conducting it. Different aspects of the proteome can be explored by choosing the right combination of sample preparation, MS instrumentation and data processing. This chapter gives an outline for some of these commonly used setups and some of the key concepts, many of which are explored in greater depth in later chapters.

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Acknowledgments

R.M. is supported by Fundação para a Ciência e a Tecnologia (FCT) Ciência 2007. IPATIMUP is an Associate Laboratory of the Portuguese Ministry of Science, Technology and Higher Education and is partially supported by FCT. R.M. is further supported by FCT grants (PTDC/QUI-BIQ/099457/2008 and PTDC/EIA-EIA/099458/2008). J. B. gratefully acknowledges financial support from the Carlsberg foundation and the Lundbeck foundation.

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  1. Institute of Molecular Pathology and Immunology of the University of Porto (IPATIMUP), Porto, Portugal

    Rune Matthiesen

  2. Department of Biochemistry and Molecular Biology, University of Southern Denmark, Odense M, Denmark

    Jakob Bunkenborg

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  1. Rune Matthiesen
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  2. Jakob Bunkenborg
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  1. Inst. Molecular Pathology & Immunology, Universidade do Porto Inst. Molecular Pathology & Immunology, Porto, Portugal

    Rune Matthiesen

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Matthiesen, R., Bunkenborg, J. (2013). Introduction to Mass Spectrometry-Based Proteomics. In: Matthiesen, R. (eds) Mass Spectrometry Data Analysis in Proteomics. Methods in Molecular Biology, vol 1007. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-62703-392-3_1

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  • DOI: https://doi.org/10.1007/978-1-62703-392-3_1

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  • Publisher Name: Humana Press, Totowa, NJ

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