Advanced Search
MyIDEAS: Login to save this article or follow this journal

Allowing for missing genotypes in any members of the nuclear families in transmission disequilibrium test

Contents:

Author Info

  • Alpargu, Gülhan
Registered author(s):

    Abstract

    The Transmission Disequilibrium Test (TDT) detects linkage between a marker and a disease-susceptibility locus in the presence of linkage disequilibrium. The TDT requires data on the genotypes of affected offspring and their parents, which might not always be available. For example, for late onset diseases it might be difficult to find parents still alive, or genotypes of offspring might not be available. Genotyping unaffected siblings, combining different genotype data sets, or assuming a model mechanism for missing parents have all been proposed to deal with missing genotypes in parents but not in offspring. In this paper, we propose a Mendel Inheritance-Transmission Disequilibrium Test (MI-TDT) to impute missing genotypes in any members of a family with two affected offspring. Our method does not require any of the remedies mentioned above but simply utilizes the fundamental property of Mendel Inheritance on the transmission of alleles from parents to offspring. Most importantly, the MI-TDT reassures researchers about the declared significant genes when incomplete data is ignored. We illustrate the MI-TDT by identifying significant genes in type 1 diabetes from the Warren families in the United Kingdom.

    Download Info

    If you experience problems downloading a file, check if you have the proper application to view it first. In case of further problems read the IDEAS help page. Note that these files are not on the IDEAS site. Please be patient as the files may be large.
    File URL: http://www.sciencedirect.com/science/article/B6V8V-514918P-1/2/6320ac1bce486d174385792ff74d613d
    Download Restriction: Full text for ScienceDirect subscribers only.

    As the access to this document is restricted, you may want to look for a different version under "Related research" (further below) or search for a different version of it.

    Bibliographic Info

    Article provided by Elsevier in its journal Computational Statistics & Data Analysis.

    Volume (Year): 55 (2011)
    Issue (Month): 3 (March)
    Pages: 1236-1249

    as in new window
    Handle: RePEc:eee:csdana:v:55:y:2011:i:3:p:1236-1249

    Contact details of provider:
    Web page: http://www.elsevier.com/locate/csda

    Related research

    Keywords: Affected offspring Incomplete genotype Linkage disequilibrium Mendel inheritance Transmission disequilibrium Type 1 diabetes;

    References

    No references listed on IDEAS
    You can help add them by filling out this form.

    Citations

    Lists

    This item is not listed on Wikipedia, on a reading list or among the top items on IDEAS.

    Statistics

    Access and download statistics

    Corrections

    When requesting a correction, please mention this item's handle: RePEc:eee:csdana:v:55:y:2011:i:3:p:1236-1249. See general information about how to correct material in RePEc.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: (Zhang, Lei).

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If references are entirely missing, you can add them using this form.

    If the full references list an item that is present in RePEc, but the system did not link to it, you can help with this form.

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your profile, as there may be some citations waiting for confirmation.

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.