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666.Prob02 - a What is the probability of this particular...

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Biostatistics 666 Problem Set 1 Due Tuesday, January 24, 2005 1. Consider a population where allele frequencies differ between the sexes. Assume that there are equal numbers of males and females and that genotypes occur in Hardy- Weinberg proportions within each sex. Focus on a single di-allelic marker in this population. The marker has allele frequency p M = p + ∆ in males and p F = p - ∆ in females, where p=(p F + p M )/2 . a) Calculate offspring genotype frequencies after one generation of random mating. b) How do genotype frequencies differ from those expected under Hardy-Weinberg equilibrium? c) How many additional generations are required before Hardy-Weinberg equilibrium is reached? 2. In a sample of 80 individuals, 75 homozygotes for allele A, 2 homozygotes for allele B and 3 heterozygotes were observed. Conditional on the number of observed A and B alleles, answer the following questions:
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Unformatted text preview: a) What is the probability of this particular sample configuration? b) What is the probability of observing an equal or greater number of heterozygotes? c) What is the probability of observing a smaller number of heterozygotes? d) What is the chi-squared statistic for Hardy-Weinberg equilibrium? 3. Consider two loci in disequilibrium in a large population. Assume that the recombination fraction between the two loci is 0.01. In how many generations do you expect the disequilibrium coefficient D to be halved? 4. Consider the following set of haplotype frequencies: p AB = 0.3, p Ab = 0.2; p aB = 0.1; p ab = 0.4 a) Calculate D, D’ and ∆ 2 between the two markers. b) What is the probability that allele A will be present in a chromosome that carries allele b? c) What is the maximum possible value of r 2 for this marker pair?...
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