Fig. 5: Dux binding influences expression of repeat elements. | Nature Communications

Fig. 5: Dux binding influences expression of repeat elements.

From: ATAC-seq footprinting unravels kinetics of transcription factor binding during zygotic genome activation

Fig. 5

a Dux binding sites overlap with repeat elements. All potential Dux binding sites are split into sites either overlapping promoters/genes or without annotation to any known genes (upper circle, blue/red). The bottom pie chart shows a subset of the latter, additionally having highly increased binding (log2(FC) > 1), annotated to repeat elements including LTR/LINE1 elements. b Dux induces expression of transcripts specific for preimplantation. Genomic signals for the Dux binding sites which are bound in DuxOE with log2(FC) footprint score >1 (i.e., upregulated in DuxOE) are split into overlapping either LTR, LINE1 or no known genetic elements (top to bottom); each row indicates one binding-site/associated gene loci. Footprint scores (±100 bp from Dux binding sites, left column) indicate the differential Dux binding between control and DuxOE (in vitro). RNA-seq shows the normalized read-counts from matched RNA-seq samples (center columns, in vitro) and throughout development (right columns, in vivo) within ±5 kb of the respective Dux binding sites. Dark red color indicates high expression.

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