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Table 3 Allele and genotype frequencies for rs991316

From: Protective variant associated with alcohol dependence in a Mexican American cohort

dbSNP RS ID

rs991316

Minor Allele

C

HapMap MAF: MEX

0.36

HapMap MAF: CEU

0.52

HapMap MAF: AFR

0.52

HapMap MAF: ASIAN

0.04

1000GENOMES_AF

0.3970

Present Study Sample

 

 Overall MAF

0.4

AlcDepClust Phenotype

 

 Affected:

 

  MAF

0.2568

  Genotype counts

5/28/41

  HWE pvalue

1

 Unaffected:

 

  MAF

0.4347

  Genotype counts

66/174/112

  HWE pvalue

1

AlcDep3 and AlcDep4 Phenotype

 

  Genotype counts

71/202/153

  Frequency

0.1667/0.4742/0.3592

  HWE pvalue

0.7631

  1. The minor allele frequency (MAF) of rs991316 from the 1000 Genomes project (1000GENOMES_AF) was obtained from the dbSNP website (http://www.ncbi.nlm.nih.gov/SNP/). The MAFs for the HapMap ethnicities were obtained from the International HapMap Project website (http://www.hapmap.org). Genotypes for the present study are listed in the order: homozygous_minor/heterozygous/homozygous_major. Abbreviations: MAF = minor allele frequency; HWE = Hardy-Weinberg equilibrium; HapMap MAFs: MEX = Mexican ancestry in Los Angeles, California; CEU = Utah residents with Northern and Western European ancestry; AFR = average MAF of ASW (African ancestry in Southwest USA), LWK (Luhya in Webuye, Kenya), MKK (Maasai in Kinyawa, Kenya), and YRI (Yoruban in Ibadan, Nigeria); ASIAN = average MAF of CHB (Han Chinese in Beijing, China), CHD (Chinese in Metropolitan Denver, Colorado), and JPT (Japanese in Tokyo, Japan).