Table 1 eQTLs linked to Alzheimer’s disease GWAS loci

From: An integrative systems-biology approach defines mechanisms of Alzheimer’s disease neurodegeneration

Chromosome:base pair position (hg19)

Previously nominated GWAS candidate

eGene

eQTL

Ref/alt allele

P

Fixed effects regression coefficient

6:32626139

HLA-DRB1

C4A

rs6905975

C:G

1.53E-02

−0.319

8:27400592

CLU/PTK2B

EPHX2

rs66924402

A:C

4.63E-02

0.170

6:32627485

HLA-DRB1

HLA-DQA1

rs9273432

T:C

3.69E-02

−0.414

6:32608251

HLA-DRB1

HLA-DQA2

rs28383408

C:G

9.15E-03

0.428

6:32628030

HLA-DRB1

HLA-DQB1

rs9273471

G:A

2.49E-03

−0.866

6:32608820

HLA-DRB1

HLA-DQB1-AS1

rs9272670

C:T

3.35E-02

−0.390

6:32663564

HLA-DRB1

HLA-DQB2

rs5000634

A:G

3.95E-05

0.690

6:32579035

HLA-DRB1

HLA-DRB1

rs9271209

G:A

6.94E-07

−0.686

6:32574990

HLA-DRB1

HLA-DRB5

rs9271025

T:C

5.80E-04

−0.791

16:31154146

KAT8

PRSS36

rs1549299

G:A

3.04E-02

−0.393

7:100190116

ZCWPW1

PVRIG

rs2734895

T:C

2.99E-02

−0.446

6:47413226

CD2AP

RP11-385F7.1

rs6934735

A:T

4.43E-02

−0.333

  1. eGenes and variants from an eQTL analysis of temporal cortex pyramidal neuron-enriched population from human Alzheimer’s disease and control patients. Chi-squared p-value from meta-analysis across 1087 human Alzheimer’s disease and control patients across 7 previously published studies is also reported. Beta coefficient indicates the association between gene expression of the eGene and presence of Alzheimer’s disease. Chromosomal coordinates are reported according to the human genome reference hg19 and the hypothetical gene is the variant reported in Jansen et al. 2019 for that particular locus11.
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