Genetic determinants of infectious disease susceptibility 2

Supplementary Table 1: Association results and genotype counts of 251 SNPs p-values < 0.05 from stages 1 and 2 of the Indonesian study that were carried forward to stage 3 Russian study

Supplementary Table 1: Association results and genotype counts of 251 SNPs (p-values < 0.05) from stages 1 and 2 of the Indonesian study that were carried forward to stage 3 Russian study of the TB GWAS

SNP Location (Chr) Gene Risk alleleAllele frequencycontrols HWE p Cases Genotype countControls genotype count Trend p OR Cases Genotype count Controls genotype count CMH p OR Risk alleleAllele frequency controls HWE pCases Genotype count Controls genotype count CMH p OR CMH p OR

Indonesia and Russia Combined

Indonesia (95% CI)

Russia Stage3

rs10510398 3 SRGAP3 G 0.05 1 1/21/86 0/12/103 0.03104 2.17 1.054.47 1/63/536 1/44/490 0.0349 1.44 1.02 2.02 G 0.219668 0.06163 85/635/1113 72/637/1068 0.9953 1.000.891.12 0.5151 1.04 0.931.15

Legend:

chr- chromosome

LD- linkage disequilibrium

r2 – R square

D' – D prime

CMH- Cochran-Mantel-Haenszel

p- p-value

OR- odds ratio

95% CI -

95%

confidence