what are the factors affecting linkage?
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Misspecification of the parameters of the genetic model can lead to incorrect conclusions about linkage. For instance, if the genetic model is defined as complete penetrance, but the true penetrance is reduced, then any unaffected individual could be scored as a certain recombinant when, in fact, he could be a non-penetrant, non-recombinant gene carrier. Other factors that can cause incorrect conclusions include misspecifying the disease dominance (identifying a disease as dominant when it truly is recessive, or vice versa); misspecifying the marker allele frequency; or failing to include the possibility of phenocopies or sporadic cases when they truly exist.
Scoring errors can also adversely affect linkage analysis. Scoring errors include laboratory errors, where a specific genotype is labeled incorrectly, and pedigree errors, where incorrect information is collected about family relationships. The most frequent example of this is identifying half-siblings as full siblings.
Scoring errors can also adversely affect linkage analysis. Scoring errors include laboratory errors, where a specific genotype is labeled incorrectly, and pedigree errors, where incorrect information is collected about family relationships. The most frequent example of this is identifying half-siblings as full siblings.
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