Relative risks of environmental variables for Type 2 Diabetes.

<p>Relative risks of environmental variables for Type 2 Diabetes.</p

Allele frequencies and the relative risks of Type 2 Diabetes, Crohn's Disease and Rheumatoid Arthritis SNPs.

<p>1. The relative risks provided here were calculated using the GCI methodology, as explained in the <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0014338#s4" target="_blank">Methods</a> section. RR means risk-risk genotype and RN means risk-nonrisk genotype.</p><p>2. The allele frequencies are taken from the HapMap project's CEU population.</p

ROC curves for the GENEVA dataset.

<p>Effect of genetic (15 SNPs given in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0014338#pone-0014338-t006" target="_blank">Table 6</a>) and environmental factors (BMI, Smoking) versus genetic factors alone for predicting Type 2 Diabetes in 2600 cases and 3000 controls in the GENEVA data. The AUCs of the two curves are 0.727 and 0.565 respectively. The relative risks for BMI and Smoking are given in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0014338#pone-0014338-t005" target="_blank">Table 5</a>.</p

ROC curves for models with interactions vs the simple multiplicative model.

<p><b>A</b>. Crohn's Disease. <b>B</b>. Rheumatoid Arthritis. <b>C</b>. Type 2 Diabetes. In each plot, 1,000 threshold points were used.</p

The area under the curve (AUC) for the different interaction scenarios.

<p>1. The two columns correspond to the case where there is a SNP-SNP interaction in which the effect of a certain combination of genotypes has two times the product of the marginal effects.</p><p>2. The two columns correspond to the case where there is a SNP-SNP interaction in which the effect of a certain combination of genotypes is 10 times the product of the marginal effects.</p

SNPs used when analyzing the GENEVA genotype data.

<p>1. The relative risks provided here were calculated using the GCI methodology, as explained in the <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0014338#s4" target="_blank">Methods</a> section. RR means risk-risk genotype and RN means risk-nonrisk genotype.</p><p>2. The allele frequencies are taken from the HapMap project's CEU population.</p

ROC curves for the WTCCC dataset.

<p><b>A</b>. Crohn's Disease. <b>B</b>. Type 2 Diabetes. <b>C</b>. Rheumatoid Arthritis. In each plot, the black line corresponds to random expectation, the blue lines correspond to theoretical expectations (under the two disease models described in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0014338#s4" target="_blank">Methods</a>) when the genetic variable is known, the red line corresponds to GCI, and the green line corresponds to logistic regression.</p

The area under the ROC curve for the three diseases under three different scenarios.

<p>1. The ideal score when the complete genetic information is known.</p