Transmission Disequilibrium Test (TDT).

<p>The top 35 associated SNPs are listed together with the surrounding genes defined by either Grail (<a href="http://www.broadinstitute.org/mpg/grail/" target="_blank">www.broadinstitute.org/mpg/grail/</a>) or the Genome Browser (<a href="http://genome.ucsc.edu/" target="_blank">http://genome.ucsc.edu/</a>). The disease associations are acquired from the “Catalog of Published Genome-Wide Association Studies” (<a href="http://www.genome.gov/gwastudies/" target="_blank">http://www.genome.gov/gwastudies/</a>).</p><p>For PLINK: genotypes were imputed if any of the posterior probabilities were >0.95.</p><p>For expTDT: T and U are the expected transmission counts (based on all the posterior imputation probabilities).</p><p>NPL – the most significant Non Parametric Linkage (NPL) p-value for the same locus as the SNP. P-values below 0.05 are marked in italics.</p><p>T and U – the number of heterozygous parents who transmit the alleles A1 and A2, respectively. T/U – transmission odds based on the expected transmission counts.</p>*<p>the marker in the set of SNPs from the linkage analysis closest to the marker in the SNP column (when this marker was not run in the linkage analysis).</p>a<p>closest known gene. located >500 kb from associated SNP.