Supplementary Figure 5: Performance evaluation of BindSpace, PWM, LASSO and DeepBind on BAR15A PBM data.
From: BindSpace decodes transcription factor binding signals by large-scale sequence embedding
For each of the 14 homeodomain PBM experiments that are represented in both BAR15A and BindSpace, we predicted the binding affinity of TFs to the top n=3000 probes with highest intensity from each PBM experiment using BindSpace (first row), PWM (second row), LASSO (third row) and DeepBind (fourth row). In each plot, we show the Spearman’s correlation of estimated affinities to measured PBM intensities. For 8 of the 14 TFs, the PBM intensity correlated best with the BindSpace model for the same TF (marked with *), compared to 7/14 TFs for LASSO and PWMs and 6/14 TFs for DeepBind.
