Extended Data Fig. 8: DeepLiver predictions in SCENIC+ regulons and validation of predicted target sites.
a. DeepLiver zonation predictions on DeepLiver predicted target regions for different transcription factors. The number of target regions identified per transcription factors is indicated in each plot. Two-sided rank-sum Wilcoxon tests were performed to compare the distributions between the groups. Bonferroni adjusted p-values are reported on top. DeepLiver was trained on data from 4 biological replicates. b. DeepLiver activity predictions on DeepLiver predicted target regions for different transcription factors. c. Percentage of TF target regions predicted by SCENIC+ found by DeepLiver. d. ChIP-seq coverage on TF target regions predicted by DeepLiver, without centreing (that is ATAC peak coordinates) or centering on the predicted binding site. e. Overlap between target regions predicted by DeepLiver for different transcription factors. f. Distances between binding sites for a TF and binding sites of other TFs in overlapping regions. In the boxplots in a and b, the top/lower hinge represents the upper/lower quartile and whiskers extend from the hinge to the largest/smallest value no further than 1.5 × interquartile range from the hinge, respectively. The median is used as the centre. Source numerical data are available in source data.
