Table 3.

DropPhase2D6 using high molecular weight (HMW) DNA prepared with different methods.

DNA Kit	Source	CYP2D6 Genotype	rs16947varT + rs28817600varG 25 kb	rs16947varT + rs28817600varG (+RE) 25 kb	rs16947varT + rs5758550varG 116 kb	rs16947varT + rs5758550varG (+RE) 116 kb	rs16947refC + rs5758550varG 116 kb
DNeasy	WB	*1/*2	15.45	0.33	0.64	0.34	0.03
DNeasy	Tissue	*1/*2	1.8	0.14	-0.66	ND	-0.39
PrepFiler Forensic	WB	*1/*2	49.06	16.36	4.69	2.93	0.8
PrepFiler Forensic	WBC	*1/*2	57.26	18.85	6.85	1.72	0.62
MagAttract	WB	*1/*17	52.84	0.64	3.83	0.71	−0.38
MagAttract	WBC	*1/*2	50.18	−1.1	1.44	2.47	−0.8
MagAttract	Tissue	*1/*2	25.81	−0.4	0.48	0.09	0.44
MegaLong	WB	*1/*2	82.84	3.13	40.21	−0.01	−2.58
MegaLong	WBC	*2/*4	66.43	2.49	41.72	−2.41	−0.02
MegaLong	Tissue	*1/*2	63.9	3.89	13.62	0.73	1.16

DNA was prepared from liver tissue, whole blood (WB), and white blood cells (WBC) using different commercially available DNA extraction kits. All kits produced DNA of sufficient integrity to perform linkage over a distance of 25 kb. The MegaLong kit was, however, superior for phasing over the longer distance of 116 kb, as demonstrated by high values of percent linkage. For DNA samples prepared with the PrepFiler Kit, false-positive linkage was observed in the negative controls reactions, i.e., when DNA was pre-treated with restriction enzyme EcoRI (+RE). This was only observed for this extraction kit and is likely due to incomplete digestion by the enzyme. Samples with at least 5% linked molecules and a difference of at least 5% linked molecules between positive and negative control duplexes are shown in bold.