Figure 2

Characterization of functional YY1 binding sites. Sequence logo [102] for YY1 binding sites from (a) PWM and sites that are functionally (b) ubiquitously activating (9 BS) or (c) ubiquitously repressive (16 BS) in four human cell lines. In (d), we plot the mean vertebrate phyloP conservation score [90] around functional YY1 binding sites. The mean score, ${\bar{S}}_{phylo{P}_{\mathsf{\text{vert}}}}$, was computed at each base for sites where the binding event ubiquitously activated (black line) or repressed (red line) transcription in all four cell lines. The position weight matrix that was used to predict YY1 binding sites is shown (scale on the right axis).