Inference of human continental origin and admixture proportions using a highly discriminative ancestry informative 41-SNP panel

Nievergelt, Caroline M; Maihofer, Adam X; Shekhtman, Tatyana; Libiger, Ondrej; Wang, Xudong; Kidd, Kenneth K; Kidd, Judith R

doi:10.1186/2041-2223-4-13

Table 3 Continental ancestry based on STRUCTURE analysis of 68 test populations genotyped on the 41-AIM panel with HGDP subjects included as reference populations

From: Inference of human continental origin and admixture proportions using a highly discriminative ancestry informative 41-SNP panel

Population	Africa	Middle East	Europe	CS Asia	E Asia	Americas	Oceania	85% MS*	50% MS*	Population	Africa	Middle East	Europe	CS Asia	E Asia	Americas	Oceania	85% MS*	50% MS*
Africa ( n = 823)										C.S. Asia ( n = 142)
MBU	0.988	0.002	0.002	0.002	0.002	0.001	0.003	1	1	GIH	0.010	0.056	0.032	0.811	0.042	0.026	0.024	0.61	0.93
BIA	0.988	0.003	0.002	0.002	0.002	0.001	0.002	1	1	KER	0.010	0.064	0.044	0.805	0.044	0.021	0.013	0.50	0.93
IBO	0.975	0.005	0.004	0.004	0.004	0.003	0.005	1	1	THT	0.040	0.035	0.026	0.696	0.065	0.061	0.078	0.21	0.79
YOR	0.974	0.005	0.005	0.005	0.004	0.003	0.004	1	1	KCH	0.010	0.053	0.040	0.590	0.209	0.065	0.034	0.19	0.63
YRI	0.969	0.006	0.005	0.007	0.005	0.004	0.005	0.99	1	Siberia ( n = 47)
ZRM	0.957	0.010	0.008	0.010	0.006	0.004	0.006	0.95	1	KTY	0.007	0.076	0.224	0.198	0.330	0.145	0.020	0	0.06
LSG	0.947	0.008	0.009	0.008	0.007	0.007	0.015	1	1	East Asia ( n = 680)
LWK	0.941	0.017	0.012	0.012	0.007	0.005	0.006	0.95	1	ATL	0.003	0.004	0.005	0.007	0.965	0.011	0.005	1	1
HAS	0.930	0.020	0.012	0.015	0.010	0.007	0.008	0.86	1	CHB	0.004	0.005	0.005	0.007	0.963	0.010	0.007	1	1
CGA	0.889	0.036	0.025	0.026	0.010	0.006	0.008	0.71	1	CHS	0.006	0.006	0.005	0.009	0.960	0.008	0.005	1	1
MAS	0.844	0.060	0.039	0.029	0.011	0.010	0.006	0.45	1	JPN	0.005	0.005	0.004	0.006	0.967	0.008	0.005	1	1
SND	0.841	0.050	0.030	0.038	0.023	0.009	0.010	0.47	1	CHT	0.006	0.004	0.004	0.007	0.961	0.012	0.007	0.98	1
AAM	0.781	0.069	0.070	0.039	0.017	0.012	0.012	0.44	0.91	KOR	0.004	0.005	0.004	0.007	0.964	0.010	0.006	0.98	1
ASW	0.761	0.057	0.092	0.042	0.017	0.023	0.008	0.24	1	AMI	0.005	0.005	0.004	0.008	0.966	0.005	0.007	0.97	1
MKK	0.748	0.120	0.051	0.055	0.011	0.008	0.007	0.22	0.99	CHD	0.005	0.006	0.006	0.008	0.957	0.010	0.008	0.97	1
ETH	0.430	0.402	0.096	0.055	0.006	0.004	0.007	0	0.39	HKA	0.004	0.005	0.005	0.008	0.956	0.013	0.008	0.97	1
Middle East ( n = 165)										JPT	0.005	0.006	0.005	0.008	0.957	0.016	0.005	0.97	1
YMJ	0.012	0.745	0.166	0.061	0.007	0.004	0.004	0.47	0.85	LAO	0.012	0.011	0.009	0.015	0.930	0.011	0.012	0.91	1
KWT	0.029	0.685	0.072	0.158	0.024	0.016	0.016	0.36	0.79	MVF	0.007	0.014	0.012	0.019	0.924	0.018	0.006	0.90	1
SAM	0.004	0.648	0.269	0.058	0.009	0.009	0.003	0.32	0.76	CBD	0.017	0.034	0.021	0.022	0.878	0.009	0.018	0.85	1
DRU-1	0.009	0.531	0.353	0.087	0.006	0.005	0.009	0.25	0.53	YAK	0.008	0.017	0.022	0.021	0.895	0.031	0.007	0.67	1
Europe ( n = 853)										MLY	0.017	0.024	0.041	0.057	0.765	0.014	0.082	0.40	0.90
FIN	0.005	0.036	0.870	0.053	0.014	0.015	0.007	0.66	0.97	Americas ( n = 298)
IRI	0.005	0.099	0.841	0.036	0.006	0.006	0.007	0.72	0.92	KAR	0.002	0.001	0.001	0.002	0.003	0.988	0.002	1	1
EAM	0.005	0.112	0.818	0.046	0.008	0.007	0.005	0.68	0.89	SUR	0.001	0.002	0.002	0.002	0.003	0.988	0.002	1	1
DAN	0.007	0.116	0.811	0.045	0.006	0.011	0.005	0.69	0.90	PMM	0.005	0.007	0.007	0.011	0.021	0.943	0.006	0.95	1
CEU	0.007	0.111	0.806	0.055	0.009	0.007	0.005	0.63	0.90	COL-1	0.003	0.007	0.008	0.017	0.011	0.947	0.006	0.92	1
RUA	0.005	0.076	0.798	0.078	0.016	0.017	0.009	0.50	0.93	TIC	0.008	0.015	0.009	0.033	0.020	0.904	0.010	0.73	1
HGR	0.005	0.154	0.766	0.051	0.010	0.007	0.006	0.51	0.84	QUE	0.021	0.035	0.040	0.026	0.034	0.836	0.009	0.55	1
RUV	0.005	0.130	0.689	0.136	0.013	0.016	0.011	0.44	0.76	MAY	0.029	0.041	0.027	0.044	0.028	0.815	0.016	0.52	0.97
TSI	0.006	0.271	0.666	0.044	0.005	0.005	0.003	0.30	0.71	MUS	0.010	0.094	0.304	0.075	0.031	0.470	0.015	0.10	0.50
KMZ	0.005	0.064	0.661	0.172	0.037	0.038	0.023	0.18	0.80	MEX	0.024	0.179	0.248	0.164	0.032	0.344	0.009	0	0.26
ASH	0.007	0.329	0.549	0.095	0.010	0.006	0.005	0.22	0.58	Oceania ( n = 69)
ADY	0.005	0.184	0.540	0.241	0.016	0.010	0.005	0.22	0.58	PNG-1	0.006	0.003	0.003	0.003	0.009	0.004	0.972	1	1
SRD-1	0.006	0.398	0.538	0.038	0.009	0.006	0.005	0.30	0.58	NAS	0.006	0.004	0.004	0.005	0.015	0.006	0.960	0.92	1
CHV	0.005	0.110	0.535	0.224	0.084	0.023	0.019	0.22	0.51	MCR	0.020	0.014	0.008	0.019	0.680	0.010	0.249	0	0.14
RMJ	0.005	0.490	0.453	0.039	0.007	0.003	0.003	0.13	0.46	SMO	0.018	0.031	0.034	0.056	0.694	0.016	0.151	0	0

*85% MS (50% MS): percent of subjects with at least 85% (or 50%, respectively) membership in the geographically pre-assigned continental cluster.

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ISSN: 2041-2223

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