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Fig. 5 | EPJ Nonlinear Biomedical Physics

Fig. 5

From: Network concepts for analyzing 3D genome structure from chromosomal contact maps

Fig. 5

Joint influence of the exponent α and MDS implementation. a, b Log-log scatter plot of the reconstructed distances R with respect to the contact frequencies F for two values α=0.2a and α=1b of the edge-length exponent α, and two MDS implementations: nonclassical metric MDS (mMDS, top) and classical MDS (cMDS, bottom). Minus the slope of the red line gives the exponent α of the best power-law fit \(R_{ij} \sim F_{ij}^{-\alpha ^{*}}\). As a guide for the eyes, the dashed black lines, with the same starting point as the red lines, represent the line with slope −0.227=−α FISH . c Exponent α as a function of α Sh (see Fig. 4) for cMDS (green line) and mMDS (red line); the dashed blue diagonal corresponds to α =α Sh . d Exponent α as a function of α for cMDS (green line) and mMDS (red line); the dashed blue diagonal corresponds to α =α. Same data as in Fig. 4 a

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