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Fig. 7 | BMC Bioinformatics

Fig. 7

From: Inferring chromosome radial organization from Hi-C data

Fig. 7

Overview of the computational analysis approaches. At the first step, the whole genome Hi-C matrix is thresholded in order to extract strong interactions. Next, the pairwise inter-chromosomal strong interaction pattern matrix obtained from the thresholded Hi-C data is analyzed using PCA to determine the underlying CT distribution type. The radial CT organization is also modeled from the thresholded interactions by generating multiple 3D network model configurations. Out of those configurations, clusters of models having similar radial arrangements are identified and the particular cluster matching the inferred CT distribution type from PCA is selected for further downstream analysis. Finally, the network modeling inferred radial organization can be tuned by incorporating chromosome gene density and length properties

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