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Table 2 Summarized individual genotyping results for SNPs and TDT results.

From: Association study in the 5q31-32 linkage region for schizophrenia using pooled DNA genotyping

SNP ID Position Gene name Type* Pooling p-value Total sample (N trios) Frequency children Frequency parents T/NT χ2 Individual genotyping total sample p-value Individual genotyping 300 trios pool p-value
rs17169180 135188954 LOC153328 C/A 0.008 613 0.14 0.15 142/176 3.64 0.06 0.20
rs1859430 135258412 IL9 T/C 0.04 599 0.19 0.20 177/203 1.78 0.18 0.14
rs30747 135366739 TGFBI C/A 0.04 590 0.05 0.05 60/58 0.03 0.85 0.28
rs7715300 135456919 TGFBI C/A 0.03 612 0.06 0.08 64/108 11.26 0.001 0.18
rs2906066 141560461 - T/C 0.05 589 0.14 0.13 122/145 1.98 0.16 0.57
rs7443175 141675612 SPRY4 T/C 0.03 612 0.23 0.25 239/200 3.46 0.06 0.36
rs6897690 141681136 SPRY4 A/G 0.008 615 0.22 0.24 255/209 4.56 0.03 0.0006
rs153423 141794129 - C/T 0.05 611 0.21 0.20 180/202 1.27 0.26 0.46
  1. Gene names are given for the intragenic SNPs and SNPs within 30 kb of a gene (column 3,"Gene name").
  2. * Minor allele is always presented first and its frequencies in children and in parents are given in columns 7 and 8 ("Frequency children", "Frequency parents"). Transmission/non-transmission counts from heterozygous parents for the minor allele in each case are in column 9 ("T/NT"). P-values from Transmission Disequilibrium Test (TDT) for the total sample and the pool sample are given in the column 11 ("Individual genotyping total sample p-value") and column 12 ("Individual genotyping 300 trios pool p-value"). Predicted pooling p-values are presented in column 5, ("Pooling p-value"). Pooling p-value is also provided for rs2906066, although it is not on the array, because it is in complete LD with rs2961720 which produced that p-value. All markers were in Hardy-Weinberg equilibrium.