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Depletion of the Chromatin Looping Proteins CTCF and Cohesin Causes Chromatin Compaction: Insight into Chromatin Folding by Polymer Modelling

Figure 3

Example of polymer conformations of the adapted DL model at different looping regimes.

(A) Conformation of the adapted-DL polymer with high short-range (pshort = 0.12) and low long-range (plong = 0.04) looping probabilities and (B) the same polymer with low short-range (pshort = 0.04) and high long-range (plong = 0.12) looping probabilities. The colour code labels the monomers of the polymer according to the visible spectrum along the length of the polymer. The inset in panel A displays the same situation as in (A) after abolishing all long-range looping (plong = 0), showing that a uniform thick fibre is formed. More adapted DL polymer conformations with the same looping probabilities as shown in (A) and (B) are shown in Figure S5. (C) Conformation of the domain-adapted DL polymer with high short-range (pshort = 0.16) and low long-range (plong = 0.02) looping probabilities and (D) the same polymer with low short-range (pshort = 0.02) and high long-range (plong = 0.16) looping probabilities. Here, topological domains are labelled red and non-looping linker regions blue.

Figure 3

doi: https://doi.org/10.1371/journal.pcbi.1003877.g003