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Methylation Analysis Using Microarrays: Analysis and Interpretation

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Tumor Profiling

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1908))

Abstract

This chapter discusses analysis and interpretation of large-scale Illumina DNA methylation microarray data, used in the context of cancer studies. We outline commonly used normalization procedures and list issues to consider regarding data preprocessing. Focusing on software packages for R, we describe methods for finding features in the methylation data that are of importance for generating and testing hypotheses in cancer research, like differentially methylated positions or regions and global methylation trends.

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Author information

Authors and Affiliations

  1. Department of Pathology and Genetics, Sahlgrenska Cancer Center, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, Gothenburg, Sweden

    Teresia Kling & Helena Carén

Authors
  1. Teresia Kling
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  2. Helena Carén
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Corresponding author

Correspondence to Helena Carén .

Editor information

Editors and Affiliations

  1. Department of Pathology, University of California San Diego, La Jolla, CA, USA

    Sarah S. Murray

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Kling, T., Carén, H. (2019). Methylation Analysis Using Microarrays: Analysis and Interpretation. In: Murray, S. (eds) Tumor Profiling. Methods in Molecular Biology, vol 1908. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-9004-7_14

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  • DOI: https://doi.org/10.1007/978-1-4939-9004-7_14

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-9002-3

  • Online ISBN: 978-1-4939-9004-7

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