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Figure S1. STRUCTURE triangle plot of 2962 discovery study individuals and 209 unrelated individuals from HapMap Phase II populations (YRI – cluster 1, CEU – cluster 2 and CHB/JPT – cluster 3) using 494 ancestry informative markers.

Figure S2. Q-Q plot for –log10 (P-values) of all autosomal SNPs not flagged for QC metrics among 2962 VTE cases and controls.

Figure S3. Linkage disequilibrium (r2) patterns among controls subjects for markers on chromosome 1q24.2 showing evidence of an association with venous thromboembolism at the genome-wide level of significance.

Figure S4. Linkage disequilibrium (r2) patterns among controls subjects for SNPs in ABO showing evidence of association with venous thromboembolism at the genome-wide level of significance.

Figure S5. The estimated odds ratios (case) and corresponding 95% confidence intervals under an additive model for an association of SNPs in chromosome 1.q24.2 with venous thromboembolism by SNP physical position.

Figure S6. The estimated odds ratios (case) and corresponding 95% confidence intervals under an additive model for an association of ABO SNPs with venous thromboembolism by SNP physical position.

Figure S7. ABO resequencing coverage of the top ABO SNPs from the genome-wide association results.

Figure S8. Number of cases (total n = 1488) and controls (total n = 1439) with the rare alleles of ABO rs2519093 and ABO rs8176719, represented as 0, 1, and 2 versions of the rare allele for each SNP.

Table S1. Demographic and clinical characteristics for venous thromboembolism cases and controls in the discovery population.

Table S2. In silico analyses of merged genome-wide scan (GWS) and candidate gene (CG) SNPs with < 10−5 for an association with venous thromboembolism, adjusted for age, sex, stroke or myocardial Infarction, and USA state of residence.

Table S3. Demographic and clinical characteristics for venous thromboembolism cases and controls in the replication population.

Table S4. Description of the 25 most significant chromosome 1q24.2 SNPs associated with venous thromboembolism, including minor allele, minor allele frequency (MAF), odds ratio (OR) and P-value, adjusted for age, sex, stroke or myocardial infarction, and USA state of residence.

Table S5. 10-SNP-sliding-window haplotype analysis of the 25 most significant chromosome 1q24.2 SNPs associated with venous thromboembolism, adjusted for age, sex, stroke or myocardial infarction, and USA state of residence.

Table S6. ABO single nucleotide variants (SNVs) significantly associated with venous thromboembolism by linkage disequilibrium blocks displayed in Figure 3.

Table S7. Association analysis results between the four ABO blood types (i.e. ABO blood type haplotype/genotype or phenotype) and venous thromboembolism, adjusted for age, sex, state of residence, and prior stroke or myocardial infarction.

Table S8. Attributable risk (AR) and associated 95% confidence intervals (95%CI) for F5 rs6025 (Factor V Leiden), F2 rs1799943 (prothrombin G20210A) and ABO blood type haplotype or genotype assuming an additive model for each SNP or haplotype.

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