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Chunk #45 — DISCUSSION

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Case-control association testing in the presence of unknown relationships.
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While part of our investigation involved simulation, simulation cannot evaluate every possible situation. In particular, in isolated populations, there may be variable levels of inbreeding, common genetic background from the shared complex and deep genealogies, or differences between social kinship and biological kinship. Such isolated populations motivated us to explore Scenario II and III which simulated the relatively simple situation of the availability of only partial information about relatedness among samples. Real situations probably involve much deeper genealogies, but even these simple situations demonstrated the impact of the missing relationship information.