Extended Data Figure 1: Overview of various features of chromosomal architecture detected and quantified in Hi-C contact maps. | Nature

Extended Data Figure 1: Overview of various features of chromosomal architecture detected and quantified in Hi-C contact maps.

From: Two independent modes of chromatin organization revealed by cohesin removal

Extended Data Figure 1

Top row, intra-chromosomal maps show the decay of contact frequency with genomic distance, which can be quantified with the curves of contact frequency P(s) versus genomic separation s. Middle row, both intra- and inter-chromosomal maps display a checkered pattern caused by compartmentalization of the genome. This pattern can be quantified by a continuous genomic track obtained via eigenvector decomposition of either cis or trans maps. Bottom row, intra-chromosomal maps at short genomic distance scales reveal domains of enriched contact frequency, which appear as bright squares along the main diagonal, and peaks which appear as bright dots connecting two loci. Both can be detected and quantified using specialized algorithms.

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