Extended Data Fig. 8: In vitro binding relationships between AP-1 and FOX transcription factors.

a, Gene expression of FOX family transcription factors in all stem cells in primary tissue (n = 23 mice). b, Multi-scale footprinting at sample genomic loci. Top, expanded copy of multiscale plot below. The X-axis represents distance in base pairs from the AP-1 motif center and the Y-axis represents radius of footprint being evaluated. The color represents -log10(p-value) from a one-sided binomial test of the predicted footprint at given radius and genomic position. For all in vitro binding scores, a 14 bp footprint radius was used. c, Genomic tracks of in vivo tissue footprint score (top), Tn5 insertions relative to naked DNA alone (middle), and in vitro binding score for given TF combinations. d, All loci and combinations of TFs tested by in vitro binding assay. Columns are positions relative to AP-1 motif site center and rows are each individual genomic locus. Color represents in vitro binding score calculation of -log10(p-value) at 14 bp radius. e, Average in vitro binding scores across all loci in panel (d). f, AlphaFold predicted structures for Fos-Jun dimer, composite motif and either Foxa1, Foxn2 or Foxj2. g, UniProt domain annotation for FOX TFs with black boxes indicating regions predicted to interact with Fos/Jun heterodimer. Numbers indicate amino acid positions. DBD = DNA binding domain, ZF = Zinc finger, LZ = Leucine zipper. h, Predicted interactions with Foxp1 and Jun alone. All error bars are s.e.m.