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Table 4 Percentages of markers passing quality control for different panels using the HapMap ASW sample

From: Development of admixture mapping panels for African Americans from commercial high-density SNP arrays

Panel (# of AIMs)

# in ASW (% passed QC) *

Reference

Based on δ (2,076)

2,058 (100%)

This manuscript

Based on F ST (1,923)

1,907 (100%)

This manuscript

21 k random markers (21,637)

21,235 (99.97%)

This manuscript

2 k random markers (2,169)

2,130 (99.95%)

This manuscript

Tian 2000 AIMs (2,000)

1,022 (100%)

[28]

Tian 4222 AIMs (4,222)

2,125 (100%)

[28]

  1. * AIMs in ASW HapMap data set and passing quality control for the different panels (locus call rate ≥ 95%, minor allele frequency > 0.01, and HWE p ≥ 1.0×10-3).
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BMC Genomics

ISSN: 1471-2164

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