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Copy Number Variation

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Genetic Epidemiology

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1793))

Abstract

Differences between genomes can be due to single nucleotide variants (SNPs), translocations, inversions and copy number variants (CNVs, gain or loss of DNA). The latter can range from sub-microscopic events to complete chromosomal aneuploidies. Small CNVs are often benign but those larger than 250 kb are strongly associated with morbid consequences such as developmental disorders and cancer. Detecting CNVs within and between populations is essential to better understand the plasticity of our genome and to elucidate its possible contribution to disease or phenotypic traits.

While the link between SNPs and disease susceptibility has been well studied, to date there are still very few published CNV genome-wide association studies; probably owing to the fact that CNV analysis remains a slightly more complex task than SNP analysis (both in term of bioinformatics workflow and uncertainty in the CNV calling leading to high false positive rates and unknown false negative rates). This chapter aims at explaining computational methods for the analysis of CNVs, ranging from study design, data processing and quality control, up to genome-wide association study with clinical traits.

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Authors and Affiliations

  1. Institute of Social and Preventive Medicine, University Hospital of Lausanne, Lausanne, Switzerland

    Aurélien Macé & Zoltán Kutalik

  2. Department of Computational Biology, University of Lausanne, Lausanne, Switzerland

    Aurélien Macé

  3. Swiss Institute of Bioinformatics, Lausanne, Switzerland

    Aurélien Macé & Zoltán Kutalik

  4. Nestlé Institute of Health Sciences, Lausanne, Switzerland

    Armand Valsesia

Authors
  1. Aurélien Macé
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  2. Zoltán Kutalik
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  3. Armand Valsesia
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Correspondence to Armand Valsesia .

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Editors and Affiliations

  1. Department of Hygiene and Epidemiology, University of Ioannina Medical School, Ioannina, Greece

    Evangelos Evangelou

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Macé, A., Kutalik, Z., Valsesia, A. (2018). Copy Number Variation. In: Evangelou, E. (eds) Genetic Epidemiology. Methods in Molecular Biology, vol 1793. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7868-7_14

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  • DOI: https://doi.org/10.1007/978-1-4939-7868-7_14

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