Finding the epistasis needles in the genome-wide haystack

Marylyn D. Ritchie

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Citations (Scopus)

Abstract

Genome-wide association studies (GWAS) have dominated the field of human genetics for the past 10 years. This study design allows for an unbiased, dense exploration of the genome and provides researchers with a vast array of SNPs to look for association with their trait or disease of interest. GWAS has been referred to as finding needles in a haystack and while many of these "needles," or SNPs associating with disease, have been identified, there is still a great deal of heritability yet to be explained. The missing or phantom heritability is due, at least in part, to epistasis or gene-gene interactions, which have not been extensively explored in GWAS. Part of the challenge for epistasis analysis in GWAS is the sheer magnitude of the search and the computational complexity associated with it. An exhaustive search for epistasis models is not computationally feasible; thus, alternate approaches must be considered. In this chapter, these approaches will be reviewed briefly, and the incorporation of biological knowledge to guide this process will be further expanded upon. Real biological data examples where this approach has yielded successful identification of epistasis will also be provided. Epistasis has been known to be important since the early 1900s; however, its prevalence in mainstream research has been somewhat overshadowed by molecular technology advances. Due to the increasing evidence of epistasis in complex traits, it continues to emerge as a likely explanation for missing heritability.

Original languageEnglish (US)
Title of host publicationEpistasis
Subtitle of host publicationMethods and Protocols
PublisherSpringer New York
Pages19-33
Number of pages15
ISBN (Electronic)9781493921553
ISBN (Print)9781493921546
DOIs
StatePublished - Nov 17 2014

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Genome-Wide Association Study
Needles
Genes
Genome
Single Nucleotide Polymorphism
Medical Genetics
Research Personnel
Technology
Research
Computational complexity

All Science Journal Classification (ASJC) codes

  • Medicine(all)
  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Ritchie, M. D. (2014). Finding the epistasis needles in the genome-wide haystack. In Epistasis: Methods and Protocols (pp. 19-33). Springer New York. https://doi.org/10.1007/978-1-4939-2155-3_2
Ritchie, Marylyn D. / Finding the epistasis needles in the genome-wide haystack. Epistasis: Methods and Protocols. Springer New York, 2014. pp. 19-33
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Ritchie, MD 2014, Finding the epistasis needles in the genome-wide haystack. in Epistasis: Methods and Protocols. Springer New York, pp. 19-33. https://doi.org/10.1007/978-1-4939-2155-3_2

Finding the epistasis needles in the genome-wide haystack. / Ritchie, Marylyn D.

Epistasis: Methods and Protocols. Springer New York, 2014. p. 19-33.

Research output: Chapter in Book/Report/Conference proceedingChapter

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Ritchie MD. Finding the epistasis needles in the genome-wide haystack. In Epistasis: Methods and Protocols. Springer New York. 2014. p. 19-33 https://doi.org/10.1007/978-1-4939-2155-3_2