Selection of a threshold for NRSE2 and correlation of score with repression activity. (A) The 33 known instances (▲) and four false positives (filled ovals) listed in Table S1 were scored with the NRSE2 PSFM using a consensus score, as described in the text and methods. A threshold of 84% of the best possible score (match #5) was selected conservatively to exclude the known false positives. The PSFMs exclude about 6% of known instances at this relatively high threshold. (B) The NRSE2 PSFM score of 10 known instances and three false positives were plotted against their relative repression in a transient transfection of a reporter from Schoenherr et al. (1996), where 100% and above reporter activity represents no repression. The regression shows a marked correlation between PSFM match score and repression (R2 = 0.82).
