Table 1 Corresponding ancestry estimates in three continental HapMap groups, CEU (Europe), CHB (East Asia), and YRI (Africa) using different SNP sets
From: Evaluating the accuracy of AIM panels at quantifying genome ancestry
CEU | CHB | YRI | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
SNPs | Training set populations | % | SD | 95% CI | Range | % | SD | 95% CI | Range | % | SD | 95% CI | Range | |
Genome Ancestry | 1,440,616 | AFR/ASI/EUR | 100 | 0.1 | 100-100 | 100-100 | 100 | 0 | 100-100 | 100-100 | 100 | 0 | 100-100 | 99.4-100 |
10,000 rSNPs 1 | 10,000 | AFR/ASI/EUR | 99.7 | 0.7 | 99.9-100 | 98.5-100 | 100 | 0.2 | 99.9-100 | 98.6-100 | 99.9 | 0.3 | 99.5-99.9 | 96.9-100 |
1,000 rSNPs 1 | 1,000 | AFR/ASI/EUR | 97.0 | 3.5 | 98.1-99.4 | 91.0-100 | 98.8 | 2.2 | 97.7-98.9 | 91.7-100 | 98.3 | 2.2 | 96.1-98.0 | 87.0-100 |
500 rSNPs 1 | 500 | AFR/ASI/EUR | 94.8 | 1.2 | 96.5-98.5 | 86.1-100 | 97.5 | 3.6 | 95.8-97.8 | 86.8-100 | 96.8 | 3.6 | 93.3-96.2 | 80.4-100 |
GAL | 446 | AFR/AME/EUR | 92.7 | 3.1 | 91.9-93.6 | 86.6-100 | 96.0 | 3.0 | 95.1-96.8 | 89.5-100 | 99.1 | 1.2 | 98.8-99.4 | 95.8-100 |
ILU | 360 (310)2 | CEU/CHB + JPT/YRI | 87.8 | 4.7 | 86.5-89.1 | 73.9-98.1 | 97.0 | 2.5 | 96.3-97.7 | 90.1-100 | 98.7 | 1.7 | 98.2-99.2 | 92.9-100 |
HAL | 1763 (162)2 | AFR/AME/EUR/ASI | 87.0 | 7.2 | 85.0-89.0 | 70.2-100 | 93.9 | 5.1 | 92.4-95.3 | 77.6-100 | 96.2 | 3.7 | 95.2-97.2 | 86.6-100 |
KOS | 128 | AFR/ASI/EUR/ASI/SAS/AME/MEX/PRI | 87.4 | 6.5 | 85.6-89.2 | 73.4-100 | 90.7 | 5.4 | 89.2-92.2 | 77.9-100 | 97.9 | 2.8 | 97.1-98.7 | 90.6-100 |
NAS | 93 | OCE/ASI/AFR/SAM/EUR | 87.5 | 7.4 | 85.4-89.5 | 70.2-100 | 89.0 | 6.1 | 87.3-90.6 | 77.0-100 | 97.7 | 3.2 | 96.8-98.6 | 88.1-100 |
PHI | 34 (27)2 | AFR/EUR/ASI | 93.8 | 8.2 | 91.5-96.1 | 67.5-100 | 92.7 | 8.3 | 90.4-95.0 | 73.6-100 | 90.1 | 9.0 | 87.6-92.5 | 65.0-100 |
COR | 24 (23)2 | SAM/EUR/AFR | 90.9 | 9.7 | 88.2-93.5 | 58.4-100 | 89.5 | 12.7 | 86.0-93.0 | 37.5-100 | 92.7 | 8.1 | 90.5-95.0 | 57.7-100 |
LAO | 10 | AFR/EUR/ASI/AME | 83.6 | 14.5 | 79.6-87.7 | 48.5-100 | 85.9 | 19.0 | 80.7-91.2 | 30.4-100 | 81.0 | 16.5 | 76.4-85.5 | 33.9-100 |