Extended Data Fig. 8: TAD fusion in R3-only mutants. | Nature Genetics

Extended Data Fig. 8: TAD fusion in R3-only mutants.

From: In vivo dissection of a clustered-CTCF domain boundary reveals developmental principles of regulatory insulation

Extended Data Fig. 8: TAD fusion in R3-only mutants.

a. cHi-C maps from E11.5 mutant distal limbs at 10 kb resolution (top). Data mapped on custom genome containing the DelBs deletion. Insets represent a magnification (5 kb resolution) of the centromeric (left) and telomeric (right) loops. Highlighted by brackets on the map. Lost chromatin loops represented by empty dots. Subtraction maps (bottom) showing gain (red) or loss (blue) of interactions in mutants compared to DelBs. b. Insulation score values. Lines represent mutants. Dots represent the local minima of the insulation score at EP boundary for each mutant, also measured as boundary score (BS). c. Virtual 4C profiles with Pax3 promoter as a viewpoint for the genomic region displayed in panel A. Light gray rectangle highlights Epha4 enhancer region. Note increased interactions between Pax3 promoter and Epha4 enhancer in R3-only (blue) compared to DelBs mutant (gray). d. Pax3 qPCR analysis in E11.5 limb buds from CBS mutants. Bars represent the mean and white dots represent individual replicates. Values normalized against DelBs mutant (ΔΔCt). Note no difference in Pax3 misexpression between R3-only and ΔALL (two-sided T-test p-value ns: non significant).

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