Fig. 2: Retinal chromatin interactions are tissue specific and conserved in mouse. | Nature Communications

Fig. 2: Retinal chromatin interactions are tissue specific and conserved in mouse.

From: High-resolution genome topology of human retina uncovers super enhancer-promoter interactions at tissue-specific and multifactorial disease loci

Fig. 2

A Stratum-adjusted correlation coefficient (SCC) showing similarity of contact maps between tissue types averaged across all autosomal chromosomes. B Chromosome-level correlation of A/B compartments between retina and various tissues. C Venn diagram of gene transcription start sites present in the A compartment across sample types. A selection of retina-enriched genes (see methods) exclusively identified as A compartment in retina samples are highlighted. D Comparison of Hi-C contact maps for retina and ACC neuron at the PAX6, OTX2 and CRX loci. Scales represent the number of Knight-Ruiz (KR) normalized contact counts. E Human-mouse conservation of gene-gene shared occupancy within a TAD (top) and gene-gene contacts via Hi-C loop calls (bottom). Percentages given are relative to the number of mouse gene-gene pairs. F Hi-C contact maps and loops in a syntenic region of the human and mouse genomes. Solid lines on contact maps indicate computationally called TADs; dashed lines on the mouse contact map show human TAD boundaries overlaid on mouse genome. Scales represent the number of KR normalized contacts. Abbreviations LCL Lymphoblastoid B-cell line, ACC Anterior cingulate cortex, TADs Topologically associating domains.

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