Table 1. Assessment of assay performance using laboratory clones 3D7, IT and HB3.

Sample	Genomic DNA (ng)	n° SNPs analyseda	Intensity (R>0.1)	Filtration Ab	Filtration Bc	Correlation between replicatesd
			n° SNPs	n° SNPs	n° SNPs
3D7	250	384	343	339	319	1.000
	25	319	319	319	319	1.000
	2.5	319	319	319	317	0.999
	0.25	319	318	313	312	0.999
HB3	250	319	305	315	304	0.999
	25	319	303	305	301	0.998
	2.5	319	303	302	300	0.999
	0.25	319	305	244	237	0.998
IT	250	319	305	307	303	0.999
	25	319	305	311	304	0.999
	2.5	319	304	306	300	0.995
	0.25	319	307	294	290	0.999

^a319 SNP set was defined from assessments of genotype concordance in 250 ng replicates of the 3D7 reference strain.

^bFiltration criteria A: SNPs with genotype concordance between replicates >0.95.

^cFiltration criteria B: SNPs with R>0.1 and with genotype concordance between replicates >0.95.

^dMean correlation between replicates.