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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