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Table 2 Distribution of SNP effects and proportion of expected total marker variance for each class

From: Genome position specific priors for genomic prediction

 

JER-AUS

HOL-AUS

HOL-NOR

Distribution

Protein

Fat

Milk

Protein

Fat

Milk

Protein

Fat

Milk

0

462816 (0%)

461458 (0%)

461173 (0%)

462734 (0%)

461215 (0%)

462715 (0%)

460980 (0%)

461134 (0%)

460155 (0%)

0.0001

2413 (35%)

3752 (45%)

4111 (49%)

2623 (52%)

4223 (70%)

2487 (38%)

4387 (67%)

4270 (64%)

5205 (65%)

0.001

299 (44%)

318 (38%)

239 (28%)

179 (36%)

95 (16%)

332 (50%)

170 (26%)

127 (19%)

171 (21%)

0.01

14 (21%)

14 (17%)

19 (23%)

6 (12%)

9 (15%)

8 (12%)

5 (8%)

11 (17%)

11 (14%)

  1. Posterior means of the number of times the indicator variable fell in each of the four distributions in the mixture for protein yield, fat yield and milk-yield in Australian Jersey (JER-AUS), Australian Holstein (HOL-AUS) and Nordic Holstein (HOL-NOR). Expected proportion of marker variance in each class was calculated as the number of markers in the class times the proportion of genetic variance assigned to each marker (0, 0.0001, 0.001 or 0.01) divided by the sum of marker variance in all classes.