Polymer Simulations of Heteromorphic Chromatin Predict the 3D Folding of Complex Genomic Loci von Buckle, Adam, Brackley, Chris A., Boyle, Shelagh, Marenduzzo, Davide, Gilbert, Nick

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Transcription modulates chromatin dynamics and locus configuration sampling von Forte, Giada, Buckle, Adam, Boyle, Shelagh, Marenduzzo, Davide, Gilbert, Nick, Brackley, Chris A.

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Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization von Brackley, Chris A, Taylor, Stephen, Papantonis, Argyris, Cook, Peter R, Marenduzzo, Davide

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Polymer Modeling Predicts Chromosome Reorganization in Senescence von Chiang, Michael, Michieletto, Davide, Brackley, Chris A., Rattanavirotkul, Nattaphong, Mohammed, Hisham, Marenduzzo, Davide, Chandra, Tamir

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Exploiting native forces to capture chromosome conformation in mammalian cell nuclei von Brant, Lilija, Georgomanolis, Theodore, Nikolic, Milos, Brackley, Chris A, Kolovos, Petros, van Ijcken, Wilfred, Grosveld, Frank G, Marenduzzo, Davide, Papantonis, Argyris

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The dynamics of supply and demand in mRNA translation von Brackley, Chris A, Romano, M Carmen, Thiel, Marco

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Simulating the chromatin-mediated phase separation of model proteins with multiple domains von Ancona, Marco, Brackley, Chris A.

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A computational model for microbial colonization of an antifouling surface von Sinclair, Patrick, Longyear, Jennifer, Reynolds, Kevin, Finnie, Alistair A, Brackley, Chris A, Carballo-Pacheco, Martín, Allen, Rosalind J

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Nucleosome positions alone can be used to predict domains in yeast chromosomes von Wiese, Oliver, Marenduzzo, Davide, Brackley, Chris A.

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Simulated binding of transcription factors to active and inactive regions folds human chromosomes into loops, rosettes and topological domains von Brackley, Chris A, Johnson, James, Kelly, Steven, Cook, Peter R, Marenduzzo, Davide

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Evolutionarily conserved enhancer-associated features within the MYEOV locus suggest a regulatory role for this non-coding DNA region in cancer von Davidson, Brigid S A, Arcila-Galvis, Juliana Estefania, Trevisan-Herraz, Marco, Mikulasova, Aneta, Brackley, Chris A, Russell, Lisa J, Rico, Daniel

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Predicting genome organisation and function with mechanistic modelling von Chiang, Michael, Brackley, Chris A., Marenduzzo, Davide, Gilbert, Nick

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Model for Quorum-Sensing Mediated Stochastic Biofilm Nucleation von Sinclair, Patrick, Brackley, Chris A., Carballo-Pacheco, Martín, Allen, Rosalind J.

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HMGB2 Loss upon Senescence Entry Disrupts Genomic Organization and Induces CTCF Clustering across Cell Types von Zirkel, Anne, Nikolic, Milos, Sofiadis, Konstantinos, Mallm, Jan-Philipp, Brackley, Chris A., Gothe, Henrike, Drechsel, Oliver, Becker, Christian, Altmüller, Janine, Josipovic, Natasa, Georgomanolis, Theodore, Brant, Lilija, Franzen, Julia, Koker, Mirjam, Gusmao, Eduardo G., Costa, Ivan G., Ullrich, Roland T., Wagner, Wolfgang, Roukos, Vassilis, Nürnberg, Peter, Marenduzzo, Davide, Rippe, Karsten, Papantonis, Argyris

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capC-MAP: software for analysis of Capture-C data von Buckle, Adam, Gilbert, Nick, Marenduzzo, Davide, Brackley, Chris A

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Nonequilibrium dynamics and action at a distance in transcriptionally driven DNA supercoiling von Fosado, Yair A. G., Michieletto, Davide, Brackley, Chris A., Marenduzzo, Davide

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Transcriptional Bursts in a Nonequilibrium Model for Gene Regulation by Supercoiling von Ancona, Marco, Bentivoglio, Alessandro, Brackley, Chris A., Gonnella, Giuseppe, Marenduzzo, Davide

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Predictive Polymer Models for 3D Chromosome Organization von Chiang, Michael, Forte, Giada, Gilbert, Nick, Marenduzzo, Davide, Brackley, Chris A.

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Predicting the three-dimensional folding of cis-regulatory regions in mammalian genomes using bioinformatic data and polymer models von Brackley, Chris A, Brown, Jill M, Waithe, Dominic, Babbs, Christian, Davies, James, Hughes, Jim R, Buckle, Veronica J, Marenduzzo, Davide

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High-resolution simulations of chromatin folding at genomic rearrangements in malignant B cells provide mechanistic insights into proto-oncogene deregulation von Rico, Daniel, Kent, Daniel, Karataraki, Nefeli, Mikulasova, Aneta, Berlinguer-Palmini, Rolando, Walker, Brian A, Javierre, Biola M, Russell, Lisa J, Brackley, Chris A

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