Table 2

KIR haplotyping methodology – SNP ratios for gene copy number
Gene copy determination using peak ratios
Amplicona Exon Genes amplifiedb Gene ratios SNP ratiosc Observed peak ratios
2DL2-001 5 2DL2, 2DL3, 2DS2, 2DP1 (3DL2) (2DS2+2DL2+2DL3):2DP1 C:T at 137 1:1, 2:1, 3:1, 3:2, or 4:1
(2DL2+2DL3):2DP1 A:C at 206 1:1 or 2:1
(2DL2+2DL3):2DS2 206(A):209(T) 1:1 or 2:1
2DL3-006 7/8 2DL3, 2DS3/5 2DL3:2DS35 G:T at 136 1:1, 2:1, 1:2
2DL5 3 2DL1/4/5 3DP1 2DL5:(2DL4+3DP1) G:C at 170 1 or multiple copies
2DP1-002 3 2DP1 No ratio data
2DS2-002 4 2DL1/2/3, 2DS2, 3DP1 No ratio data
2DS35-005 4 2DS1, 2DS3/5, 3DP1, (2DL1) 2DS1:2DS3 A:G at 446 1:1 or 1:2
2DS3:2DS5 446(G):447(A) 1:1, 2:1, 1:2
3DL1-002 4 3DL1, 3DS1
3DL1-005 4 3DL1, 3DS1 3DL1:3DS1 T:G at 167 1:1
KIR-2DL2-N1 4 2DL2/3, 2DS2 2DP1 2DS2:2DP1 213(A):217(C) 1:1 or 1:2
KIR-2DS2-N1 5 2DL2/3 2DP1 2DS2 No ratio data
2DS1-4-002 4 2DS1, 2DL1, 2DS4 (2DS35) 2DS1:2DL1:2DS4 A:C:T at 257 1:1:1, 1:2:1, 0:1:1, 0:2:1, or 0:1:2
2DS1-004 4 2DS1, 2DL1, (2DS4) No ratio data
3DL1-3DS1-01 4 3DL1, 3DS1, 3DL2 (3DL1+3DS1):3DL2 Multiple SNPs 1:1, 0:2, 1:2 or 3:2
3DL1-3DS1-05 4 3DL1, 3DS1, 3DL2 (3DL1+3DS1):3DL2 Multiple SNPs 1:1, 0:2, 1:2 or 3:2

a see supplementary Additional file 1: Table S3 for primer sequences.

b loci listed in parenthesis indicate secondary PCR products amplified only in the absence of the target locus.

c SNPs in parenthesis indicate ratios determined on nonoverlapping positions.

Pyo et al.

Pyo et al. BMC Genomics 2013 14:89   doi:10.1186/1471-2164-14-89

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