TagSNP transferability and relative loss of variability prediction from HapMap to an admixed population

Table 1 Characteristics of genomic regions genotyped in this study

SNP rs	Gene	Allele	Chr	Position	Average Distance (Kb)	Gene Extension (Kb)
rs3789607	PTPN22	C/T	1	114078476	5.80	34.80
rs2476600	PTPN22	A/G	1	114081776
rs1217395	PTPN22	A/G	1	114086477
rs2476601	PTPN22	A/G	1	114089610
rs2476602	PTPN22	A/G	1	114108997
rs1217418	PTPN22	A/G	1	114113273
rs3931914	HMGCR	C/G	5	74663770	4.08	28.52
rs3761740	HMGCR	A/C	5	74667889
rs10515198	HMGCR	C/T	5	74677316
rs2241402	HMGCR	A/T	5	74682011
rs12654264	HMGCR	A/T	5	74684359
rs2303151	HMGCR	A/G	5	74691207
rs12916	HMGCR	C/T	5	74692295
rs2544040	VDR	A/G	12	46509213	4.42	79.60
rs11608702	VDR	A/T	12	46515035
rs7968585	VDR	C/T	12	46518360
rs9729	VDR	A/C	12	46522890
rs731236 (TaqI)	VDR	C/T	12	46525024
rs7975232 (ApaI)	VDR	A/C	12	46525104
rs1544410 (BsmI)	VDR	A/G	12	46526102
rs2248098	VDR	C/T	12	46539623
rs2239179	VDR	A/G	12	46544033
rs886441	VDR	C/T	12	46549231
rs10735810 (FokI)	VDR	A/G	12	46559162
rs2254210	VDR	A/G	12	46559981
rs2853564	VDR	C/T	12	46564754
rs2853559	VDR	C/T	12	46569072
rs3890734	VDR	A/G	12	46575622
rs10783219	VDR	A/T	12	46581755
rs4516035	VDR	C/T	12	46586093
rs11568820 (CDX-2)	VDR	A/G	12	46588812
rs3764261	CETP	G/T	16	55550825	5.10	30.61
rs711752	CETP	A/G	16	55553712
rs1532624	CETP	G/T	16	55562980
rs5882	CETP	A/G	16	55573593
rs2303790	CETP	A/G	16	55574793
rs289747	CETP	A/G	16	55581439

SNPs are identified by their rs number, gene, alleles, chromosome and position according to HapMap release #23a (NCBI build 36, dbSNP b126), average distance between markers and gene extension in Kb.

ISSN: 1423-0127