Figure 3
From: Data analysis issues for allele-specific expression using Illumina's GoldenGate assay
Log-ratios for 3 SNPs from the mixture experiment. The left and right hand columns show SNPs from series A and B respectively. Each series consists of similar titrations, which have each been replicated on 3 arrays. The data is ordered by increasing amount of sample 1 in the mixture (from 0:100 to 100:0). From top to bottom, we see SNPs which exhibit extreme ASE, intermediate ASE and no ASE respectively. Such SNPs provide the truth for our ROC analysis (Figures 4 and 5). The examples in the top and middle rows are true positives, of which there are 782 in series A and 808 in series B. The bottom example is a true negative, of which there are 533 in series A and 502 in series B.