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Table 2 The top 10 genes identified by VEGAS2

From: Genome-wide network-based pathway analysis of CSF t-tau/Aβ1-42 ratio in the ADNI cohort

Chr

Gene

nSNPs

Test

Pvalue

TopSNP

TopSNP-Pvalue

19

APOC1

6

274.96

1.00E-06

rs4420638

2.58E-28

19

APOE

7

188.92

1.00E-06

rs769449

4.98E-23

19

PVRL2

19

228.01

1.00E-06

rs2075650

4.23E-18

19

TOMM40

11

363.85

1.00E-06

rs769449

4.98E-23

17

PDK2

11

103.37

5.00E-06

rs3809762

1.86E-06

17

ITGA3

15

111.81

7.40E-05

rs3809762

1.86E-06

19

CBLC

2

24.35

1.12E-04

rs2965121

1.45E-04

17

CCL7

5

28.84

2.38E-04

rs991804

2.28E-04

19

KLK7

12

56.02

2.76E-04

rs11084043

7.74E-05

1

PTGER3

97

400.30

3.07E-04

rs7540868

1.89E-04

  1. Chr: Chromosome; Gene: Gene name; nSNPs: Number of SNPs in the input file that map to the gene; Test: The sum of the individual chi-squared 1 degree of freedom SNP-association test statistic; Pvalue: The gene-based p-value considering the full set of SNPs; TopSNP: The name of the most significant SNP within the gene; TopSNP-Pvalue: The p-value for the most significant SNP with the gene