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Table 4 Showing e-QTLS and associated phenotypes for SNPs under VDR peak significantly enriched for trait association

From: Integration of VDR genome wide binding and GWAS genetic variation data reveals co-occurrence of VDR and NF-κB binding that is linked to immune phenotypes

Chrom

ChromStart

ChromEnd

Strand

Reference Allele

Observed Alleles

SNP under VDR peak (Lead + LD SNP)

RegulomeDB score

e-QTL (affected gene)

Associated GWAS Trait

chr4

38805982

38805983

-

T

A/G

rs5743565

1b

TLR10/TLR6/TLR1

Self-reported allergy

chr4

38784723

38784724

+

T

A/T

rs10004195

1f

TLR6

Helicobacter pylori serologic status

chr11

64140703

64140704

+

C

C/T

rs10897487

1f

CCDC88/FLJ37970

Leprosy

chr11

64140736

64140737

+

G

C/G

rs475032

1f

CCDC88/FLJ37970

Leprosy

chr12

56401084

56401085

+

G

A/G

rs10876864

1f

RPS26

Vitiligo

  1. Five of 42 trait-associated SNPs which were e-QTLs with RegulomeDB score 1, e-QTL gene and traits associated with these SNPs in GWAS studies are shown