Fig. 5: MinSeqs annotate genome-wide and cell-specific binding.
From: Hidden modes of DNA binding by human nuclear receptors
a Receiver operating characteristic (ROC) curves obtained by scoring the top 500 RXRA ChIP-seq peaks in HEPG2 and H1-hESCs cells using DeepBind and MinSeq Find algorithms on published RXRA DNA–protein interactome data (RXRA*—dark brown and tan curves, respectively). The red curve displays ChIP-seq classification using MinSeqs from our new RXRA + 17 DNA–protein interactome data. b The heatmaps deconvolute the contribution of binding sites bearing different half-site arrangements for each of the 500 genomic loci identified by ChIP (scaled from high (red) to low (white) using normalized precision values TPR/(TPR + FPR)). c Venn diagram for ChIP peaks bearing direct repeat of 5ʹRGKTCR3ʹ half site with a 1- or 5-nucleotide spacer. These peaks (HG38) have normalized precision greater than 0.9 in the two cell lines. ChIP profiles aligned with the corresponding MinSeq scores of RXRA + 17 for representative ChIP peaks in the Venn Diagram. (Source data are provided as a Source Data file. Designed by Laura Vanderploeg).
