SNP-SNP interaction with Parkinson's disease risk according to the models from the Lesnick <i>et al.</i> publication.

<p>SNP-SNP interaction with Parkinson's disease risk according to the models from the Lesnick <i>et al.</i> publication.</p

Simulation analysis.

<p>(A) Histogram of randomly-selected SNPs and highly-selected SNPs, both generated under a null model and uncorrected for multiple testing. The selected SNPs were obtained by taking the most significant SNP from a set of 1,400 null SNPs. The random SNPs were obtained by randomly-selecting a marker from the 198k SNPs. The 200 presented data points were generated from 200 iterations of the simulation. (B) Distribution of −log(<i>P</i>-value) for global likelihood ratio test from the observed method and the permuted method that mimic Lesnick's model selection scheme (see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0002707#s4" target="_blank">Materials and Methods</a>). <i>P</i>-values were tallied from 500 observed models and 500 permuted models.</p

Dot plot showing regression scores of individual cases and controls in the Celera and Thessaly sample sets.

<p>A score was calculated for each individual as the sum of the specified main and interaction effects shown in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0002707#pone-0002707-t002" target="_blank">Table 2</a>.</p

Association results for the putative axon guidance pathway model with Parkinson's risk.

<p>note: A score for each subject was calculated based on the coefficients given in the Lesnick paper.</p><p>Odds ratio represents the increase for each one unit change in the score.</p

Odds ratio analysis for the groups defined by predicted PD probability in the Thessaly sample set.

*<p>Because we didn't have data in the nominal groups that Lesnick et al. defined (our predicted probabilities ranged from 0.328 to 0.634), we did not use the Lesnick et al. groupings. To be able to calculate odds ratios we broke the predicted probabilities into quartiles and calculated the odds ratios for each of the groups.</p>**<p>Wald test with 3 degrees of freedom.</p

Single marker association with Parkinson's disease risk according to the models from the Lesnick <i>et al.</i> publication.

*<p>ADD: log additive; DOM: Mendelian dominant; REC, Mendelian recessive.</p>**<p>Lesnick et al. PLoS Genet 3(6): e98. <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0002707#pone-0002707-t001" target="_blank">Table 1</a>.</p