Fig. 1: Schematic flowchart for DIMES. | Nature Communications

Fig. 1: Schematic flowchart for DIMES.

From: A maximum-entropy model to predict 3D structural ensembles of chromatin from pairwise distances with applications to interphase chromosomes and structural variants

Fig. 1: Schematic flowchart for DIMES.The alternative text for this image may have been generated using AI.

Either imaging (measurements of chromatin loci coordinates) or Hi-C data (contact map) may be used to compute or infer the mean pairwise distance matrix, which is used as constraints to determine the maximum-entropy distribution PMaxEnt. The parameters, which we refer to as the connectivity matrix K, in the PMaxEnt, are obtained through an optimization procedure using either iterative scaling or gradient descent algorithm, as explained in the “Methods” and Supplementary Note 1. The ensemble of structures (coordinates of chromatin loci) can be randomly sampled from the distribution PMaxEnt.

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