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Table 4 Comparison of SNP allele frequencies of the studied Caucasian sample with the data on Africans/African- Americans from databases and literature

From: Current limitations of SNP data from the public domain for studies of complex disorders: a test for ten candidate genes for obesity and osteoporosis

Gene SNP Reference population Database or references Data from a database or reference Caucasiansa P
     Frequencyb n Frequency n  
APOE 2 African-Americans dbSNP 0.48 24 0.399 1,839 0.52
  3 African-Americans dbSNP 0.10 24 0.149 1,858 0.56
  4 African-Americans dbSNP 0.04 24 0.087 1,783 0.25
ER-α 11 SANGER 12 DNAs of African-American origin dbSNP 0.08 12 0.257 1,857 0.32
  12 African/African-Americans dbSNP 0.27 24 0.218 1,859 0.61
  13 TSC panel of African-Americans dbSNP 0.16 40 0.098 1,863 0.27
  15 African/African-Americans dbSNP 0.28 23 0.203 1,863 0.42
IL-6 16 African/African-Americans dbSNP 0.96 24 0.434 1,860 <0.01
LEPR 20 TSC panel of African-Americans dbSNP 0.45 42 0.353 1,860 0.25
TGF-ß1 26 TSC panel of African-Americans TSC 0.27 42 0.311 1,840 0.61
   African/African-Americans dbSNP 0.15 24 0.311 1,840 0.07
UCP3 32 African-American females [70] 0.15 57 0.265 1,767 0.07
  33 African-Americans [73] 0.08 18 0.000 295 0.06
  34 African-American females [70] 0.45 63 0.258 1,862 <0.01
  35 African-American females [70] 0.247 73 0.447 1,863 <0.01
   African/African-Americans [74] 0.20 276 0.447 1,863 <0.01
  36 African-Americans [70] 0.00 18 0.000 295 10.00
VDR 38 African-American males [77] 0.244 37 0.373 1,861 0.15
  40 African-American males [77] 0.312 32 0.419 1,860 0.30
   Nigerians [82] 0.37 93 0.419 1,860 0.41
  41 African/African-Americans dbSNP 0.35 24 0.408 1,859 0.71
   African-American males [77] 0.244 39 0.408 1,859 0.06
  1. For gene abbreviations and SNP designations see Table 1. a Present study. b Frequency of the allele corresponding to a minor allele in the present study.