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Table 1 Frequencies of alleles protective against HIV-1 in Biaka and Mbuti Pygmies

From: Evidence for selection at HIV host susceptibility genes in a West Central African human population

Gene SNP Coding Variant Protective Allele Biaka Mbuti
 Non-synonymous coding SNP
APOBEC3G rs8177832a H186R A 0.86** 0.65
APOBEC3H rs139298 K121E A 0.25 0.12
CXCR6 rs2234355 E3K A 0.38* 0.12
TRIM5 rs10838525 R136Q T 0.11 0.00
PARD3B rs10185378b T- > I T 0.18 0.19
 Associated with HIV-1 infection/AIDS progression in an African American cohort
CUL5 rs11212495   A 1.00 0.96
HLA-C rs9264942   C 0.46 0.27
 Associated with HIV-1 infection/AIDS progression in a European cohort
RPA12 (ZNRD1) rs9261174   C 0.32 0.31
  1. Human genes are listed for which a SNP reported to be associated with HIV-1 outcome was genotyped in the human genome diversity panel (HGDP). For each SNP, allele frequencies are listed for the protective allele in Biaka and Mbuti.
  2. Boldface indicates protective alleles for which the Biaka had a higher allele frequency than the Mbuti. For coding variants, the amino acid listed after the position is the protective variant. Within each pygmy population, all alleles were at Hardy-Weinberg equilibrium after Bonferroni correction (p < 0.00625).
  3. *Indicates that the allele frequency difference between Biaka and Mbuti is significant (p < 0.05) using Fisher's exact test.
  4. **Indicates that the allele frequency difference between Biaka and Mbuti is significant after Bonferroni correction for multiple tests (p < 0.00625).