Table 1

Summary of SNP markers analysed
dbSNP ID Chr. Major allele Minor allele Minor allele frequency Call rate Method
rs2284746 1 C G 47.7% 91.6% OpenArray
rs993925 1 C T 34.9% 97.6% OpenArray
rs12477314 2 C T 20.2% 97.7% OpenArray
rs2544527 2 C T 35.9% 97.8% OpenArray
rs1344555 3 C T 21.3% 98.0% OpenArray
rs1529672 3 C A 17.8% 98.5% TaqMan
rs9310995 3 T C 43.6% 98.2% OpenArray
rs1541374 4 G T 34.6% 94.1% OpenArray
rs10067603 5 A G 24.3% 96.2% OpenArray
rs1551943 5 G A 23.6% 97.3% OpenArray
rs153916 5 T C 45.8% 97.9% OpenArray
rs2798641 6 C T 17.6% 98.3% OpenArray
rs1928168 6 C T 49.6% 98.3% OpenArray
rs2855812a 6 G T 26.4% 97.1% OpenArray
rs2857595a 6 G A 21.5% 95.4% OpenArray
rs3094548 6 C G 35.2% 97.5% OpenArray
rs3734729 6 A G 4.3% 97.9% OpenArray
rs6903823 6 A G 26.8% 99.4% TaqMan
rs11001819 10 A G 48.9% 97.1% OpenArray
rs7068966b 10 T C 48.5% 98.1% OpenArray
rs1878798b 10 G C 46.2% 96.9% OpenArray
rs1036429 12 C T 21.3% 98.0% OpenArray
rs11172113 12 T C 41.3% 97.6% OpenArray
rs4762767 12 G A 27.5% 97.7% OpenArray
rs12914385c 15 C T 38.6% 97.0% OpenArray
rs2036527c 15 G A 33.8% 97.8% OpenArray
rs8040868c 15 T C 38.9% 96.3% OpenArray
rs2865531 16 A T 40.9% 99.5% TaqMan
rs12447804d 16 C T 23.4% 95.2% OpenArray
rs3743563d 16 C T 23.1% 98.6% OpenArray
rs12716852 16 A G 45.2% 97.5% OpenArray
rs9978142 21 A T 14.2% 97.6% OpenArray

Legend: The table shows the reference SNP (rs) ID number and chromosome location of all markers, minor allele frequency and call rate (number of successful genotype calls as a percentage of the total samples assayed). The four groups of non-independent SNPs (defined as pair wise linkage disequilibrium r2>0.29) are indicated by superscripts a-d.

Kerr et al.

Kerr et al. BMC Medical Genetics 2013 14:38   doi:10.1186/1471-2350-14-38

Open Data