Table 3

Chromosome-wise number of significant SNPs in reference population (REF) and the confirmed SNP in the validation population (VAL)
chromosome 1Unique significant SNPs in REF dataset 2Confirmed in VAL dataset 3Number of confirmed SNPs within boundary of QTL in COMB dataset
1 22 15 7
2 3 2 -
3 41 31 6
4 20 8 3
5 7 5 2
6 52 22 5
7 8 5 1
8 8 5 2
9 27 19 9
10 19 10 4
11 8 5 2
12 12 6 4
13 34 17 10
14 4 2 -
15 25 15 2
16 9 6 -
17 6 4 -
18 99 36 19
19 62 39 15
20 27 9 5
21 5 1 -
22 1 1 -
23 39 20 4
24 3 1 -
25 60 28 9
26 11 6 3
28 11 2 -
29 3 - -

1Number of unique SNPs in the REF dataset those were significant chromosome wide level.

2Confirmed in the VAL dataset at P < 0.05.

3Any of the confirmed SNPs that fell in the boundaries of QTL defined for the COMB dataset of any trait presented in Table 4.

Höglund et al.

Höglund et al. BMC Genetics 2012 13:71   doi:10.1186/1471-2156-13-71

Open Data