Additional file 11 of Reliable scaling of position weight matrices for binding strength comparisons between transcription factors MaXiaoyan EzerDaphne NavarroCarmen AdryanBoris 2015 Figure S4. Comparison of Îť values calculated by using different pseudo-count values in PWMs. Subfigure A shows the comparison between the Îťvalues obtained by using PWMs with pseudocounts of 1 and 3 (the adjusted R 2 is 0.973), while subfigure B compares pseudocounts of 1 and 0.3 (the adjusted R 2 is 0.978). Each dot represents a TF from 100 randomly chosen vertebrate TFs in JASPAR database [5]. (PDF 31.2KB)