Distributions of numbers of nuclear families and inheritance vector bit in the 1919 pedigrees.

<p>Distributions of numbers of nuclear families and inheritance vector bit in the 1919 pedigrees.</p

Parameter estimates from segregation analysis of ovarian cancer in 1919 proband-ascertained pedigrees.

†<p>Parameters in square brackets were fixed at the values indicated; <b>^‡</b>M indicates Mendelian transmission: τ_AA = 1.0, τ_AB = 0.5, τ_BB = 0.0.</p>§<p>The meaning of γ parameters is as follows: ^γ_md represents mother/daughter residual association; ^γ_ss represents sister/sister residual association; <b>^*</b>Parameter hit bound; <b>^§</b>No. of independent parameters: (no. of parameters in model) – (no. of parameters fixed at boundary) – (no. of dependent and or fixed parameters); Chi-square is defined as (-2 ln L) of the data under the specific hypothesis minus (−2 ln L) of the data under the general model.</p

Distribution of ovarian cancer affection status among relationship pairs.

<p>Distribution of ovarian cancer affection status among relationship pairs.</p

Plot showing distributions of number of generations in the 1919 pedigrees.

<p>Plot showing distributions of number of generations in the 1919 pedigrees.</p

Distribution of relationship types in the study sample.

‡<p>Values in parentheses indicate number of dummy individuals used for the purpose of pedigree connections and who were not considered in analysis. These dummies were mostly pedigree founders.</p

Regional association plots for <i>LHX2</i> and <i>RREB1</i> in GIANT consortium with participants of European ancestry.

<p>The blue arrow points to the index SNPs identified from the samples of African ancestry and red arrow points to the best SNPs in GIANT consortium samples of European ancestry.</p

SNPs associated with waist-related trait at p<5.0E-6 in Stage 1.

1<p>effect allele/other allele.</p>2<p>effect allele frequency.</p>3<p>one-side test p-value.</p>4<p>P_2GC: double GC-corrected p-value.</p

Interrogation of best SNPs with the smallest p-value within known EA loci in AA for trait WHR ratio adjusted for BMI.

<p>The index SNPs are from Heid et al, Nature Genetics 2010 <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1003681#pgen.1003681-Heid1" target="_blank">[17]</a>. Note that <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1003681#pgen-1003681-t003" target="_blank"><b>Tables 3</b></a> and <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1003681#pgen-1003681-t004" target="_blank"><b>4</b></a> show different information for the same loci (<a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1003681#pgen-1003681-t003" target="_blank"><b>Table 3</b></a> for index SNP and <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1003681#pgen-1003681-t004" target="_blank"><b>Table 4</b></a> for best SNPs with the smallest p-value).</p>1<p>effect allele/other allele.</p>2<p>effect allele frequency.</p>3<p>number of independent (typed) SNPs interrogated in AA sample.</p>4<p>Bonferroni p-value threshold (0.05/N³).</p>5<p>HapMAP LD information.</p>6<p>one-side test p-value.</p>7<p>P_2GC: double GC-corrected p-value.</p

Cross-trait associations for novel loci from Stage1 + Stage 2 in participants of African ancestry.

1<p>effect allele/other allele.</p>2<p>effect size based on Stage 1 and Stage 2 combined sample.</p

Regional association plots based on single GC-corrected p-value for <i>LHX2</i> and <i>RREB1</i>, Stage 1 only.

<p>MAF = minor allele frequency. The p-values for the index SNP rs2075064 in <i>LHX2</i> loci are 5.5E-8, 0.03, and 2.2E-8 for Stage 1, Stage 2 and joint analysis. The p-values for the index SNP rs6931262 at <i>RREB1</i> loci are 5.3E-8, 0.02 and 2.5E-8 for Stage 1, Stage 2 and joint analysis. The double GC-corrected p-value for the joint analysis are 6.5E-8, 5.7E-8 and 1.8E-6 for rs2075064, rs6931262 and rs1294410, respectively.</p