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. Author manuscript; available in PMC: 2021 Jun 8.
Published in final edited form as: Dev Cell. 2020 Jun 8;53(5):561–576.e9. doi: 10.1016/j.devcel.2020.05.007

Figure 5. Identification of DNA-Binding Factors that Co-occupy Region-Specific Regulatory Elements.

Figure 5.

(A) Schematic depicting the analysis strategy used to identify motifs of region-specific transcription factors in CTCF/H3K27ac co-marked chromatin.

(B) HOMER de novo motif discovery showing enriched motifs of DNA-binding factors at CTCF and H3K27ac co-marked chromatin in E14 feathers and scales. Expression of the listed factors was validated using RNA-seq results.

(C) Normalized expression of skin region-specific DNA-binding factors during skin specification. Z score, [RPKM-(mean RPKM)/standard deviation]. The order of factors was sorted by differential expression.

(D) Lists of skin-region-specific binding motifs.

(E) Positions of an AP1 factor binding motif in feather-specific looping anchor Pk3 of the Chr27 β-krt cluster.

(F) The three-factor hypothesis elucidating how region-specific chromatin looping is established – competence factor, regional specifier, and chromatin regulators.