Table 5 Variants identified as eQTL with kidney tissue-specific expression from the NephQTL database.

From: Linkage analysis using whole exome sequencing data implicates SLC17A1, SLC17A3, TATDN2 and TMEM131L in type 1 diabetes in Kuwaiti families

Linkage SNP observed in our study (Alleles)

Differentially expressed gene@

Kidney tissue exhibiting differential expression

Alternate allele frequency$

Beta*

t-statistics&

p-value#

rs1165196 (G/A)

SLC17A4

Tubulointerstitium

0.68

0.29

4.16

5.67E-05

rs1165196 (G/A)

HIST1H2BA

Tubulointerstitium

0.68

0.27

2.65

9.15E-03

rs1165196 (G/A)

HIST1H2AA

Tubulointerstitium

0.68

0.28

2.16

3.23E-02

rs1165196 (G/A)

SLC17A3

Tubulointerstitium

0.68

0.16

2.09

3.82E-02

rs1165196 (G/A)

HIST1H4F

Tubulointerstitium

0.68

 − 0.22

 − 2.03

4.42E-02

rs1165196 (G/A)

HIST1H1A

Tubulointerstitium

0.68

 − 0.20

 − 2.03

4.48E-02

rs942379 (A/G)

HIST1H2BE

Glomerulus

0.66

0.40

2.5

0.015

rs942379 (A/G)

SLC17A4

Tubulointerstitium

0.66

0.26

3.77

2.42E-04

rs942379 (A/G)

HIST1H2BA

Tubulointerstitium

0.66

0.31

3.07

2.59E-03

rs942379 (A/G)

SLC17A3

Tubulointerstitium

0.66

0.18

2.34

2.07E-02

rs942379 (A/G)

HIST1H4F

Tubulointerstitium

0.66

 − 0.23

 − 2.16

3.27E-02

rs942379 (A/G)

HIST1H2AA

Tubulointerstitium

0.66

0.25

2.01

4.70E-02

rs394558 (G/A)

ATP2B2

Glomerulus

0.46

 − 0.37

 − 3.19

1.94E-03

rs56027330 (C/T)

SLC17A3

Glomerulus

0.07

0.40

2.0

0.047

  1. ATP2B2 ATPase plasma membrane Ca2 + transporting 2, eQTL expression of the quantitative trait locus, HIST1H1A H1.1 linker histone, cluster member, HIST1H2AA H2A clustered histone 1, HIST1H2BA H2B clustered histone 1, HIST1H2BE H2B clustered histone 6, HIST1H4F H4 clustered histone 6, NephQTL NEPTUNE patient characteristics for subjects in Expression quantitative trait loci, SLC17A3 solute carrier family 17 member 3, SLC17A4 solute carrier family 17 member 4, SNP single nucleotide polymorphism.
  2. @Genes that are differentially expressed depending on the genotype seen at the variant from the linkage signal in the cohort of individuals with either glomerular or tubulointerstitium expression data in NephQTL database.
  3. $The alternative allele frequency in subjects with either glomerular or tubulointerstitium expression data and genetic data.
  4. *Estimated regression coefficient from MatrixEQTL.
  5. &Beta coefficient divided by estimated standard error.
  6. #p-value corresponds to the probability of obtaining the observed t-statistic.
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