Fig. 4

Regulatory module analysis identified distinct binding partners of NFY in different regions. a NFY (NFYA and NFYB) and FOS participate in two distinct modules. They co-bind with SP1 and SP2 in module 40 while in module 32, they co-bind with USF1 and USF2, ATF3 and other factors. The scatter plot shows the number of binding sites of each factor in the two modules. b NFYB binds exclusively with USF2 or SP2, each with different spacing constraints. The first 3 columns show ChIP-seq read enrichment of NFYB, SP2, and USF2 in a 1-kbp window around the NFYB binding sites. The 4th column shows sequence plots in a 100 bp window around the NFYB binding sites. The regions are centered at the NFYB binding sites and sorted by the distance between NFYB and USF2 or NFYB and SP2, respectively. The sequence motifs for USF2 and SP2 can be observed around the NFYB motifs. Green, blue, yellow, and red indicate base A, C, G, and T