Linkage Analysis for Distorted and Misclassified Markers
We have described statistical methods for linkage analysis of different markers in a controlled cross. But these methods can only be appropriate for the markers whose segregation follows the Mendelian ratio (1:1 for the backcross or 1:2:1 for the F2). In a practical molecular experiment, many markers may deviate from Mendelian segregation ratios due to some genetic or biological reason (e.g., differential viability, where viability is defined as an individual’s ability to survive). If marker segregation is disturbed by viability effects, we can incorporate such effects into linkage analysis using modified methods. Bailey (1961) discussed several models for analyzing distorted markers in great detail. In this chapter we will describe the methods for estimating the recombination fraction between markers subject to differential viability.
KeywordsLinkage Analysis Sampling Error Estimation Accuracy Fisher Information Matrix Recombination Fraction
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