Table 1 Association results for IFNγ-BCG and IFNγ-ESAT6bcg phenotypes, based on genotyping data for the 3 selected variants according to the criteria described in the Methods, for the French and South African samples.

From: An eQTL variant of ZXDC is associated with IFN-γ production following Mycobacterium tuberculosis antigen-specific stimulation

LD cluster*

Position (bp)

SNP

Alleles**

Genetic Model***

Val-de Marne Sample

Tygerberg Sample

AF **

Estimated effect(SE)#

p-value

AF

Estimated effect(SE)#

p-value

IFNγ - BCG

8-3

79887368

rs12056450

G/A

Additive

0.31

0.36 (0.08)

1.2 × 10−5

0.23

0.06 (0.09)

0.25

IFNγ-ESAT6 bcg

3-2

122059775

rs9784373

T/A

Dominant

0.05

0.72 (0.17)

1.9 × 10−5

0.02

0.31 (0.30)

0.14

3–5

126129646

rs9828868

T/C

Recessive

0.49

0.49 (0.11)

9.6 × 10−6

0.46

0.12 (0.13)

0.19

  1. *LD cluster as defined in Tables S1 and S3.
  2. **The first mentioned allele is associated with high phenotype values and AF = allele frequency for the first allele mentioned. ***Genetic model for the allele mentioned in the Table.
  3. #Estimated effect = regression coefficient with its standard error (SE).
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