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Table 6 QuTie Summary Output File

From: CCRaVAT and QuTie - enabling analysis of rare variants in large-scale case control and quantitative trait association studies

Gene Chr Start End_pos SNPs/rvSNPs QT+RV QT-RV QT+RV mean QT-RV mean p-val BetaCoef St.Er [lowCI - upCI] t-test t-test_p-val
MIB2 1 0 107622 (10/1) 106 1125 -0.367 0.037 6.77E-05 0.404 0.101 [0.206 - 0.602] -3.975 3.72E-05
GOLGA8C 15 18977714 19091040 (29/4) 127 1097 -0.347 0.042 3.19E-05 0.389 0.093 [0.206 - 0.571] -4.149 1.78E-05
TPO 2 1346242 1575502 (29/6) 70 1158 0.478 -0.028 4.00E-05 -0.506 0.122 [-0.746 - -0.266] 4.107 1.80E-05
EXOC3 5 446375 570407 (24/1) 4 1228 1.935 -0.006 1.00E-04 -1.941 0.498 [-2.918 - -0.964] 3.874 5.12E-05
C10orf110 10 1008606 1130138 (66/4) 111 1116 0.379 -0.036 4.00E-05 -0.415 0.099 [-0.609 - -0.221] 4.161 1.48E-05
  1. This file provides summary statistics for all genes that achieved a p value ≤ the p value set by the -pout command line option. The summary file is a tab-delimited file with 15 columns: Gene/Window name, Chromosome, Starting bp position, End bp position, Number of SNPs in the Gene/Window, Number of individuals with low frequency/rare variant minor alleles, Number of individuals without low frequency/rare variant minor alleles, The mean QT value of individuals with low frequency/rare variant minor alleles, The mean QT value of individuals without low frequency/rare variant minor alleles, The p value of the linear regression, The Beta coefficient from the linear regression, The Standard Error of the Beta Coefficient, the lower and upper 95% confidence intervals of Beta, The t-statistic, and The t-statistic p value.