Figure 1.
Quantile–quantile (QQ) plot of the meta-analysis with up to 3.3 M SNPs across 9 studies (N = 20,427).
Each black circle represents an observed statistic for genotyped SNPs only (defined as the −log10P) against the corresponding expected statistic. The grey area corresponds to the 90% confidence intervals calculated empirically using permutations. The individual studies' inflation factors, as well as the inflation factor of the meta-analysis, were corrected using genomic control. The inflation factor of the meta-analysis is λGC = 1.064.
Table 1.
SNPs that reached genome-wide significance (P<5×10−8) in the combined analysis.
Figure 2.
SNPs are plotted using LocusZoom [22] by position on the chromosome against association with adult height (−log10 P).
The SNP name shown on the plot was the most significant SNP after the discovery meta-analysis. Estimated recombination rates (from HapMap) are plotted in cyan to reflect the local LD structure. The SNPs surrounding the most significant SNP are color coded to reflect their LD with this SNP (taken from pairwise r2 values from the ARIC African Americans Affymetrix6.0 dataset for rs1239627 (A) and from the HapMap YRI data for rs4315565 (B)). The size of the points on the plots is proportional to the number of individuals with available genotype for any given SNP. Genes, the position of exons and the direction of transcription from the UCSC genome browser are noted. Hashmarks represent SNP positions available in the meta-analysis.
Table 2.
Stratified analysis of the association between adult height and rs4315565 based on ancestry at the locus.
Figure 3.
In Europeans from the GIANT Consortium (A) [3] and in individuals of African ancestry (B) (this study) at the LCORL locus on chromosome 4. The GIANT Consortium originally reported SNP rs6449353, whereas rs7663818 was fine-mapped in the African height meta-analysis. For each panel, the light blue box corresponds to the chromosomal interval flanked by the leftmost and rightmost SNPs with a r2≥0.8 with rs7663818 in HapMap CEU (A) and YRI (B) participants: these intervals are 250 kb and 80 kb wide in CEU and YRI, respectively.
Table 3.
Fine-mapping results for SNPs associated with height in individuals of European descent [3].