Effects of supercoiling on enhancer–promoter contacts

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Transcription forms and remodels supercoiling domains unfolding large-scale chromatin structures

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Transcription-dependent dynamic supercoiling is a short-range genomic force

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Models that include supercoiling of topological domains reproduce several known features of interphase chromosomes

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Noncoding Transcription at Enhancers: General Principles and Functional Models

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Three-Dimensional Folding and Functional Organization Principles of the Drosophila Genome

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The accessible chromatin landscape of the human genome

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Topological domains in mammalian genomes identified by analysis of chromatin interactions

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Spatial partitioning of the regulatory landscape of the X-inactivation centre

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GPU Based Molecular Dynamics Simulations of Polymer Rings in Concentrated Solution: Structure and Scaling

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A Large Fraction of Extragenic RNA Pol II Transcription Sites Overlap Enhancers

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Interplay of DNA supercoiling and catenation during the segregation of sister duplexes

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Transcription factors mediate long-range enhancer-promoter interactions

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Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome

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General purpose molecular dynamics simulations fully implemented on graphics processing units

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