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Model-Based Linkage Analysis of a Quantitative Trait

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Statistical Human Genetics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1666))

Abstract

Linkage Analysis is a family-based method of analysis to examine whether any typed genetic markers cosegregate with a given trait, in this case a quantitative trait. If linkage exists, this is taken as evidence in support of a genetic basis for the trait. Historically, linkage analysis was performed using a binary disease trait, but has been extended to include quantitative disease measures. Quantitative traits are desirable as they provide more information than binary traits. Linkage analysis can be performed using single-marker methods (one marker at a time) or multipoint (using multiple markers simultaneously). In model-based linkage analysis the genetic model for the trait of interest is specified. There are many software options for performing linkage analysis. Here, we use the program package Statistical Analysis for Genetic Epidemiology (S.A.G.E.). S.A.G.E. was chosen because it also includes programs to perform data cleaning procedures and to generate and test genetic models for a quantitative trait, in addition to performing linkage analysis. We demonstrate in detail the process of running the program LODLINK to perform single-marker analysis, and MLOD to perform multipoint analysis using output from SEGREG, where SEGREG was used to determine the best fitting statistical model for the trait.

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Author information

Authors and Affiliations

  1. Case Western Reserve University, Wolstein Research Building, 2103 Cornell Road, Cleveland, OH, 44106-7281, USA

    Yeunjoo E. Song Ph.D. & Sunah Song

  2. Cardiovascular Imaging Core Laboratory, Harrington Heart & Vascular Institute, University Hospitals Cleveland Medical Center, 11100 Euclid Avenue, Cleveland, OH, 44106, USA

    Audrey H. Schnell

Authors
  1. Yeunjoo E. Song Ph.D.
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  2. Sunah Song
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  3. Audrey H. Schnell
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Corresponding author

Correspondence to Yeunjoo E. Song Ph.D. .

Editor information

Editors and Affiliations

  1. Case Western Reserve University, Cleveland, OH, USA

    Robert C. Elston

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© 2017 Springer Science+Business Media LLC

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Song, Y.E., Song, S., Schnell, A.H. (2017). Model-Based Linkage Analysis of a Quantitative Trait. In: Elston, R. (eds) Statistical Human Genetics. Methods in Molecular Biology, vol 1666. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7274-6_14

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  • DOI: https://doi.org/10.1007/978-1-4939-7274-6_14

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7273-9

  • Online ISBN: 978-1-4939-7274-6

  • eBook Packages: Springer Protocols

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