Table 1.
Discovery Study Population Characteristics.
Figure 1.
Genome-wide association results for T2D in African Americans from VGER/NUgene.
We performed single SNP test of association with >930K SNPs across the genome using logistic regression in 736 T2D cases and 827 controls. The red line indicates the genome-wide significance level p<10−8 and the blue line is indicate of suggestive associations at p<10−6.
Figure 2.
Comparison of global European ancestry in African American T2D cases and controls.
Genome-wide estimates of percent European ancestry were calculated for each individual using ANCESTRYMAP. Average European ancestry was compared between cases (20.3%) and controls (20.6%, p = 0.72).
Figure 3.
Genome-wide admixture Scan for Type 2 Diabetes.
The log (base 10) of the likelihood, referred to as the locus genome statistic, is plotted on the y-axis (in blue) and represents the likelihood of being a disease locus vs. non-disease locus dependent on significant differences in ancestral allele frequencies. The case-control statistic for each SNP is plotted on the secondary y-axis (in red) and is represented as a Z-score.
Figure 4.
Candidate region targeted for fine-mapping.
Using Seattle SNPs genome browser, the candidate genes located within 100TCIRG1 gene, their orientation, and gene structure are displayed. SNPs annotated for these genes are located at the top of the figure denoted by hash marks. (Image generated from http://pga.gs.washington.edu/).
Table 2.
Fine-mapping association results.
Figure 5.
Linkage disequilibrium 100 kb flanking rs308328 in African American T2D cases and controls.
We calculated pairwise LD (r2) around our most significant finding (circled in red) from the admixture scan in this African American study population using Haploview [37].