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Fig. 5 | Epigenetics & Chromatin

Fig. 5

From: Activation of the alpha-globin gene expression correlates with dramatic upregulation of nearby non-globin genes and changes in local and large-scale chromatin spatial structure

Fig. 5

Activation of alpha-globin gene transcription is accompanied by local changes in chromatin interaction profile. a C-TALE heatmaps showing local chromatin interaction profile in a close vicinity to AgGD (region chr14:11957600-12236390). Black star denotes the boundary between T1 and T2 TADs. All other notations are as in Fig. 4b. b C-TALE heatmap showing interactions enriched in differentiated HD3 cells as compared to DT40 cells (right part of the map) and to proliferating HD3 cells (left part of the map). The positions of FISH probes are shown with magenta and green rectangles. Regions of the map corresponding to interactions between FISH probes are encircled with dashed squares. c Schematic representation C-TALE-identified sub-TADs within T1 and T2 TADs. d The distributions of C-TALE counts corresponding to chromatin interactions inside the sub-TAD harboring alpha-globin gene cluster. Thick black lines represent median values. Asterisks represent a significant difference with a P-value <10−4 (one-tailed Wilcoxon’s signed-rank test). e The distributions of C-TALE counts corresponding to chromatin interactions between genomic bins, separated by the distance more than 60 Kb throughout the shown region without including the sub-TAD harboring alpha-globin gene cluster. All notations are as in panel (d). f Scale-plots showing the dependency of contact probability on genomic distance within the shown region. g Violin plots showing the distributions of spatial distance between FISH probes. White dots represent the medians. Asterisks represent a significant difference with a P-value <0.01 (two asterisks), and with a P-value <0.001 (three asterisks) (Mann–Whitney rank-sum test). Representative examples of FISH images are shown on the right. Scale bar 1 µm

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