Extended Data Fig. 3: NF-Y binds to the proximal CCAAT in the γ-globin promoters.

a, Upper panel, heatmap comparison of NFYA ChIP-seq in HUDEP-2 cells, NFYA CUT&RUN in primary human CD34⁺ derived erythroid cells with or without NFYA knockdown. Lower panel, comparing the signal of the above three experiments at a representative genomic region. b, Venn diagram showing the overlap between NFYA CUT&RUN and ChIP-seq peaks. c, Motif analysis from 5000 random peaks of NFYA CUT&RUN identifies CCAAT as the highest ranked motif. E-value is reported by MEME. d, Zoomed in view of BCL11A CUT&RUN in HUDEP-2 and NFYA CUT&RUN in BCL11A KO HUDEP-2 cells at the γ-globin promoters. Distal (−118 to −113) indicates the distal TGACCA motif that BCL11A binds, and proximal (−88 to −84) indicates the proximal CCAAT motif. e, Single locus footprint of NF-Y at the CCNB1 promoter (upper) and CDK1 promoter (lower). Both CCAAT motifs show strong NF-Y footprints in the two promoters. f, Single locus footprint of NF-Y at the γ-globin promoters in HUDEP-1 (upper), BCL11A KO adult CD34⁺ derived erythroid cells (middle) and cord blood CD34⁺ derived erythroid cells. Only the proximal motif shows NF-Y footprint.