A low-cost open-source SNP genotyping platform for association mapping applications

Table 1 Genotype accuracy

SNP	Number of OLA and sequence data points*	Identical data points	% Identical
es02.C3366T	79	79	100
es02.A3435G^†	89	89	100
es02.A3707C	86	86	100
es08.A16615C^†	75	75	100
es08.C16678T	77	77	100
es08.C16807T	75	75	100
es08.A16882G	71	71	100
es08.A16953T	44	44	100
es12.G27418A	66	66	100
es12.T27548A	81	81	100
es12.T27764C^†	76	76	100
es12.T27800C	69	67	97.10
es13.A29775G	86	86	100
es13.A29833C^†	90	87^‡	96.67
es13.A29956G	85	85	100
es13.C29977T	89	89	100
es13.C30040T	79	79	100
es13.C30152T^†	82	81^‡	98.78
es15.G35074A^†	322	322	100
Total	1,721	1,715	99.65

*The number of individuals assigned a genotype both in the OLA genotyping assay and by direct sequencing of the PCR product used in the assay. ^†SNP genotypes are out of Hardy-Weinberg equilibrium at P < 0.05. ^‡These differences between the genotypes given by OLA and sequencing are due to rare third alleles at the query SNP that were not seen in the initial resequencing.

ISSN: 1474-760X