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W-Test for Genetic Epistasis Testing

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Epistasis

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2212))

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Abstract

The genetic epistasis effect has been widely acknowledged as an essential contributor to genetic variation in complex diseases. In this chapter, we introduce a powerful and efficient statistical method, called W-test, for genetic epistasis testing. A wtest R package is developed for the implementation of the W-test method, which provides various functions to measure the main effect, pairwise interaction, higher-order interaction, and cis-regulation of SNP-CpG pairs in genetic and epigenetic data. It allows flexible stagewise and exhaustive association testing as well as diagnostic checking on the probability distributions in a user-friendly interface. The wtest package is available in CRAN at https://CRAN.R-project.org/package=wtest.

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Author information

Authors and Affiliations

  1. The Chinese University of Hong Kong, Hong Kong, China

    Rui Sun, Haoyi Weng & Maggie Haitian Wang

Authors
  1. Rui Sun
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  2. Haoyi Weng
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  3. Maggie Haitian Wang
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Corresponding author

Correspondence to Maggie Haitian Wang .

Editor information

Editors and Affiliations

  1. Department of Computer Science, City University of Hong Kong, Kowloon Tong, Hong Kong

    Ka-Chun Wong

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Sun, R., Weng, H., Wang, M.H. (2021). W-Test for Genetic Epistasis Testing. In: Wong, KC. (eds) Epistasis. Methods in Molecular Biology, vol 2212. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-0947-7_4

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  • DOI: https://doi.org/10.1007/978-1-0716-0947-7_4

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-0946-0

  • Online ISBN: 978-1-0716-0947-7

  • eBook Packages: Springer Protocols

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