Fig. 2
Signal plots for loci attaining genome-wide significance (p <5x10−8) from META-SCOPA meta-analysis of GWAS of lipid traits and BMI in 1,441 individuals from the Estonian Genome Center, University of Tartu. Each point represents a SNP passing quality control in the association analysis, plotted with their p-value (on a -log10 scale) as a function of genomic position (NCBI build GRCh37, UCSC hg19 assembly). In each plot, the lead SNP is represented by the purple symbol. The colour coding of all other variants indicates linkage disequilibrium with the lead SNP in European ancestry haplotypes from the 1000 Genomes Project reference panel: red r 2 ≥0.8; gold 0.6 ≤ r 2 <0.8; green 0.4 ≤ r 2 <0.6; cyan 0.2 ≤ r 2 <0.4; blue r 2 <0.2; grey r 2 unknown. Recombination rates are estimated from Phase II HapMap and gene annotations are taken from the University of California Santa Cruz genome browser