Additional file 2: Figure S2. of Multi-platform assessment of transcriptional profiling technologies utilizing a precise probe mapping methodology

Overall average absolute fold-change comparisons across platforms with entire set and transcript pattern (TP) defined subset data, with a focus on the effect of Affymetrix “Signal Space Transformation” (SST) algorithm on the overall platform fold-change magnitude. The SST, in conjunction with the regular robust multiple-array average normalization method (SST-RMA, the dark blue bars), was able to improve the fold-change in the HTA2.0 arrays, and provided a 2-5x greater fold-change estimates overall, as compared to conventional data processing method (regular RMA, the light blue bars). (TIFF 491 kb)