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. 2017 Mar 16;45(7):3663–3673. doi: 10.1093/nar/gkx172

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© The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

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Figure 1. — Schematic description of GNM methodology applied to Hi-C data. The inter-loci contact data represented by the Hi-C map (upper left, for genomic bins (loci)) is used to construct the GNM Kirchhoff matrix, (top, middle). Eigenvalue decomposition of yields a series of eigenmodes which are used for computing the covariance matrix (lower, right), the diagonal elements of which reflect the mobility profile of the loci (bottom, left), and the off-diagonal elements provide information on locus-locus spatial cross-correlations. , th eigenvector; , th eigenvalue; , number of nonzero modes, starting from the lowest-frequency mode, included in the GNM analysis (). In the present application to the chromosomes, varies in the range , the lower and upper limits corresponding respectively to chromosomes 22 and 1.

Inline graphic — Schematic description of GNM methodology applied to Hi-C data. The inter-loci contact data represented by the Hi-C map (upper left, for genomic bins (loci)) is used to construct the GNM Kirchhoff matrix, (top, middle). Eigenvalue decomposition of yields a series of eigenmodes which are used for computing the covariance matrix (lower, right), the diagonal elements of which reflect the mobility profile of the loci (bottom, left), and the off-diagonal elements provide information on locus-locus spatial cross-correlations. , th eigenvector; , th eigenvalue; , number of nonzero modes, starting from the lowest-frequency mode, included in the GNM analysis (). In the present application to the chromosomes, varies in the range , the lower and upper limits corresponding respectively to chromosomes 22 and 1.