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Using Brownian dynamics simulations, we model chromosome structure in interphase nuclei of mammalian cells testing the possibility that transcription-induced supercoiling is involved in formation of TADs. In 2018, we proposed a new model of chromatin loop extrusion, in which cohesin rings are passively pushed by formation of chromatin plectonemes resulting from transcription-induced supercoiling. We also showed by numerical simulations that chromatin loop extrusion is capable of directing DNA knots for unknotting by DNA topoisomerases.

Main publications 2019

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