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Chunk #11 — METHODS — RELATIONHIP ESTIMATION

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Case-control association testing in the presence of unknown relationships.
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yes

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Assume that individuals are from a non-inbred population in Hardy-Weinberg Equilibrium (HWE) and that each marker locus is segregating independently. For given IBD modes, the conditional probabilities of the seven possible identity by state (IBS) modes Si are shown in Table I. For a single locus of observed IBS Si, the likelihood of the k-coefficients is [Thompson, 1975] :