Reitveld et al. (2013) [which, by the way, had 203 authors!!!], found that the c
ID: 150610 • Letter: R
Question
Reitveld et al. (2013) [which, by the way, had 203 authors!!!], found that the combined effects of the three loci with highest LoD scores (of which rs9320913 is one) explained ~2% of the variance in educational attainment and cognitive function. If the LoD score is so strong, explain why these genes, although strongly associated with the traits of interest, have so little impact on phenotype The figure below is from Reitveld et al.’s (2013) study entitled “GWAS of 126,559 Individuals Identifies Genetic Variants Associated with Educational Attainment”. What is the probability that alleles at locus rs9320913 are associated with educational attainment purely by chance (either as a raw decimal or a percent) [note: y-axis = LoD]?
Received several different answers which one is correct
1. The probability that alleles at locus rs9320913 are associated with educational attainment by chance is 0.05/126559 = 3.95 x 10-7
2. in image recombination rate show distance between alleles at locus rs9320913 are associated with educational attainment in CM unit. Low Cm valve (blue dot) show high probability of association of alleles at locus rs9320913 are associated with educational attainment. there are blue dot frequency is 0.2.
so, 0.2= 1/5 = 20% probability
3. Ans: Looking at ‘r2’ value (ex: red dots 0.8) and p-value of –log 8-10 (-0.90 to -1) the probability that alleles at locus rs9320913 is 1/80 = 0.0125 chance, by looking at this value we can predict that the education attainment is purely by chance.
Can you please show work how to get the correct answer thank you very much
rs9320913 100 rs9320913 10 0.8 06 -80 04 0.2 60 40 20 POU3F2 C6orf168 MIR2113- KLHL32 FBXL4 C6orf167 99.5 98.5 Position on chr6 (Mb) 98 97.5Explanation / Answer
Answer 2 is correct
the blue dot frequency is 0.2 and 20% probablity for this question