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Family-Based Linkage Disequilibrium Tests Using General Pedigrees

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Linkage Disequilibrium and Association Mapping

Part of the book series: Methods in Molecular Biology™ ((MIMB,volume 376))

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Abstract

Linkage disequilibrium (LD) mapping has been established as a promising approach to identifying disease genes. The presence of a disease gene located near a marker locus may cause LD between the marker and the disease loci. In LD mapping, we assume that some of the affected individuals may have a common ancestor carrying the mutation and that mutation carriers are likely to share alleles at the markers loci close to the disease gene.

This chapter reviews the concept of LD mapping and outlines the advantages and disadvantages of two LD mapping approaches capable of handling general pedigrees: the family-based association test (FBAT) and pseudomarker. In summary, the pseudomarker statistical approach and the FBAT approach are both expected to offer reasonable statistical power to detect genes underlying complex traits. However, when the pedigree structure is more complicated, or when the number of informative families is limited, the pseudomarker approach is anticipated to outperform FBAT.

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Author information

Authors and Affiliations

  1. Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD

    Yin Yao Shugart, Rui Li & Terri Beaty

  2. Department of Social Medicine, University of Bristol, Bristol, UK

    Lina Chen

Authors
  1. Yin Yao Shugart
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  2. Lina Chen
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  3. Rui Li
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  4. Terri Beaty
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Editor information

Editors and Affiliations

  1. Genetic Epidemiology and Bioinformatics Group, Human Genetics Division Southampton General Hospital, Southampton, UK

    Andrew R. Collins

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© 2007 Humana Press Inc.

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Shugart, Y.Y., Chen, L., Li, R., Beaty, T. (2007). Family-Based Linkage Disequilibrium Tests Using General Pedigrees. In: Collins, A.R. (eds) Linkage Disequilibrium and Association Mapping. Methods in Molecular Biology™, vol 376. Humana Press. https://doi.org/10.1007/978-1-59745-389-9_10

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  • DOI: https://doi.org/10.1007/978-1-59745-389-9_10

  • Publisher Name: Humana Press

  • Print ISBN: 978-1-58829-669-6

  • Online ISBN: 978-1-59745-389-9

  • eBook Packages: Springer Protocols

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