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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
  1. CEU column shows the percentages (%) of European ancestry in CEU, CHB column shows the percentage of Asian ancestry in CHB, and YRI shows the percentage of African ancestry in YRI. For each population group the table shows also the standard deviations (SD), 95% confidence intervals (95%CI), and ranges (minimum-maximum values). Genome ancestry refers to the ancestry measured using the full set of SNPs in HapMap. Training set populations refer to the population groups used to design the AIM panels. AFR: Africa, ASI: Asia, SAS: South Asia, EUR: Europe, AME: America, MEX: Mexico, SAM: South America, OCE: Oceania, PRI: Puerto Rico.
  2. 1Averaged values over all the re-samples.
  3. 2Number of SNPs indicated in round brackets are those contained in the HapMap database.
  4. 3Halder et al. [37] refer to 170 AIMs; however, their supplementary data file refers to 176 AIMs.