Publicaciones Peer reviewed articles (34) Competition between local erasure and long-range spreading of a single biochemical mark leads to epigenetic bistability Autores: Marco Ancona, Davide Michieletto, Davide Marenduzzo Publicado en: Physical Review E, Issue 101/4, 2020, ISSN 2470-0045 Editor: American Physical Society DOI: 10.1103/physreve.101.042408 Mechanistic modeling of chromatin folding to understand function Autores: Chris A. Brackey, Davide Marenduzzo, Nick Gilbert Publicado en: Nature Methods, Issue 17/8, 2020, Page(s) 767-775, ISSN 1548-7091 Editor: Nature Publishing Group DOI: 10.1038/s41592-020-0852-6 Nonequilibrium Strategy for Fast Target Search on the Genome Autores: F. Cagnetta, D. Michieletto, D. Marenduzzo Publicado en: Physical Review Letters, Issue 124/19, 2020, ISSN 0031-9007 Editor: American Physical Society DOI: 10.1103/physrevlett.124.198101 capC-MAP: software for analysis of Capture-C data Autores: Adam Buckle, Nick Gilbert, Davide Marenduzzo, Chris A Brackley Publicado en: Bioinformatics, Issue 35/22, 2019, Page(s) 4773-4775, ISSN 1367-4803 Editor: Oxford University Press DOI: 10.1093/bioinformatics/btz480 Bridging-induced microphase separation: photobleaching experiments, chromatin domains and the need for active reactions Autores: C A Brackley, D Marenduzzo Publicado en: Briefings in Functional Genomics, Issue 19/2, 2020, Page(s) 111-118, ISSN 2041-2657 Editor: Oxford University Press DOI: 10.1093/bfgp/elz032 Dynamical Scaling and Phase Coexistence in Topologically Constrained DNA Melting Autores: Y. A. G. Fosado, D. Michieletto, D. Marenduzzo Publicado en: Physical Review Letters, Issue 119/11, 2017, ISSN 0031-9007 Editor: American Physical Society DOI: 10.1103/physrevlett.119.118002 Genome organization: experiments and modeling Autores: Nick Gilbert, Davide Marenduzzo Publicado en: Chromosome Research, Issue 25/1, 2017, Page(s) 1-4, ISSN 0967-3849 Editor: Kluwer Academic Publishers DOI: 10.1007/s10577-017-9551-2 Entropic elasticity and dynamics of the bacterial chromosome: A simulation study Autores: M. C. F. Pereira, C. A. Brackley, J. S. Lintuvuori, D. Marenduzzo, E. Orlandini Publicado en: The Journal of Chemical Physics, Issue 147/4, 2017, Page(s) 044908, ISSN 0021-9606 Editor: American Institute of Physics DOI: 10.1063/1.4995992 Nonequilibrium Chromosome Looping via Molecular Slip Links Autores: C. A. Brackley, J. Johnson, D. Michieletto, A. N. Morozov, M. Nicodemi, P. R. Cook, D. Marenduzzo Publicado en: Physical Review Letters, Issue 119/13, 2017, ISSN 0031-9007 Editor: American Physical Society DOI: 10.1103/physrevlett.119.138101 Ring Polymers: Threadings, Knot Electrophoresis and Topological Glasses Autores: Davide Michieletto, Davide Marenduzzo, Enzo Orlandini, Matthew Turner Publicado en: Polymers, Issue 9/12, 2017, Page(s) 349, ISSN 2073-4360 Editor: MDPI AG DOI: 10.3390/polym9080349 Simulating topological domains in human chromosomes with a fitting-free model Autores: C. A. Brackley, D. Michieletto, F. Mouvet, J. Johnson, S. Kelly, P. R. Cook, D. Marenduzzo Publicado en: Nucleus, Issue 7/5, 2016, Page(s) 453-461, ISSN 1949-1034 Editor: Landes Bioscience DOI: 10.1080/19491034.2016.1239684 Epigenetic Transitions and Knotted Solitons in Stretched Chromatin Autores: D. Michieletto, E. Orlandini, D. Marenduzzo Publicado en: Scientific Reports, Issue 7/1, 2017, ISSN 2045-2322 Editor: Nature Publishing Group DOI: 10.1038/s41598-017-13916-w Shaping epigenetic memory via genomic bookmarking Autores: Michieletto, Davide; Chiang, Michael; Colì, Davide; Papantonis, Argyris; Orlandini, Enzo; Cook, Peter R; Marenduzzo, Davide Publicado en: Nucleic Acids Research, Issue 6, 2018, ISSN 1362-4962 Editor: Oxford University Press DOI: 10.1101/184598 Ephemeral Protein Binding to DNA Shapes Stable Nuclear Bodies and Chromatin Domains Autores: Chris A. Brackley, Benno Liebchen, Davide Michieletto, Francois Mouvet, Peter R. Cook, Davide Marenduzzo Publicado en: Biophysical Journal, Issue 112/6, 2017, Page(s) 1085-1093, ISSN 0006-3495 Editor: Biophysical Society DOI: 10.1016/j.bpj.2017.01.025 Extrusion without a motor: a new take on the loop extrusion model of genome organization Autores: C. A. Brackley, J. Johnson, D. Michieletto, A. N. Morozov, M. Nicodemi, P. R. Cook, D. Marenduzzo Publicado en: Nucleus, Issue 9/1, 2018, Page(s) 95-103, ISSN 1949-1034 Editor: Landes Bioscience DOI: 10.1080/19491034.2017.1421825 Simulated binding of transcription factors to active and inactive regions folds human chromosomes into loops, rosettes and topological domains Autores: Chris A. Brackley, James Johnson, Steven Kelly, Peter R. Cook, Davide Marenduzzo Publicado en: Nucleic Acids Research, Issue 44/8, 2016, Page(s) 3503-3512, ISSN 0305-1048 Editor: Oxford University Press DOI: 10.1093/nar/gkw135 Predicting the three-dimensional folding of cis-regulatory regions in mammalian genomes using bioinformatic data and polymer models Autores: Chris A. Brackley, Jill M. Brown, Dominic Waithe, Christian Babbs, James Davies, Jim R. Hughes, Veronica J. Buckle, Davide Marenduzzo Publicado en: Genome Biology, Issue 17/1, 2016, Page(s) 59, ISSN 1474-760X Editor: BioMed Central DOI: 10.1186/s13059-016-0909-0 A single nucleotide resolution model for large-scale simulations of double stranded DNA Autores: Y. A. G. Fosado, D. Michieletto, J. Allan, C. A. Brackley, O. Henrich, D. Marenduzzo Publicado en: Soft Matter, Issue 12/47, 2016, Page(s) 9458-9470, ISSN 1744-683X Editor: Royal Society of Chemistry DOI: 10.1039/C6SM01859A Polymer model with Epigenetic Recoloring Reveals a Pathway for the de novo Establishment and 3D Organization of Chromatin Domains Autores: D. Michieletto, E. Orlandini, D. Marenduzzo Publicado en: Physical Review X, Issue 6/4, 2016, ISSN 2160-3308 Editor: American Physical Society DOI: 10.1103/PhysRevX.6.041047 Stochastic Model of Supercoiling-Dependent Transcription Autores: C. A. Brackley, J. Johnson, A. Bentivoglio, S. Corless, N. Gilbert, G. Gonnella, D. Marenduzzo Publicado en: Physical Review Letters, Issue 117/1, 2016, Page(s) 018101 (article number), ISSN 0031-9007 Editor: American Physical Society DOI: 10.1103/PhysRevLett.117.018101 Exploiting native forces to capture chromosome conformation in mammalian cell nuclei Autores: Lilija Brant, Theodore Georgomanolis, Milos Nikolic, Chris A Brackley, Petros Kolovos, Wilfred van Ijcken, Frank G Grosveld, Davide Marenduzzo, Argyris Papantonis Publicado en: Molecular Systems Biology, Issue 12/12, 2016, Page(s) 891, ISSN 1744-4292 Editor: Nature Publishing Group DOI: 10.15252/msb.20167311 Synergy of topoisomerase and structural-maintenance-of-chromosomes proteins creates a universal pathway to simplify genome topology Autores: Enzo Orlandini, Davide Marenduzzo, Davide Michieletto Publicado en: Proceedings of the National Academy of Sciences, Issue 116/17, 2019, Page(s) 8149-8154, ISSN 0027-8424 Editor: National Academy of Sciences DOI: 10.1073/pnas.1815394116 Physical principles of retroviral integration in the human genome Autores: D. Michieletto, M. Lusic, D. Marenduzzo, E. Orlandini Publicado en: Nature Communications, Issue 10/1, 2019, ISSN 2041-1723 Editor: Nature Publishing Group DOI: 10.1038/s41467-019-08333-8 Polymer Simulations of Heteromorphic Chromatin Predict the 3D Folding of Complex Genomic Loci Autores: Adam Buckle, Chris A. Brackley, Shelagh Boyle, Davide Marenduzzo, Nick Gilbert Publicado en: Molecular Cell, Issue 72/4, 2018, Page(s) 786-797.e11, ISSN 1097-2765 Editor: Cell Press DOI: 10.1016/j.molcel.2018.09.016 Dry active turbulence in a model for microtubule–motor mixtures Autores: Ivan Maryshev, Andrew B. Goryachev, Davide Marenduzzo, Alexander Morozov Publicado en: Soft Matter, Issue 15/30, 2019, Page(s) 6038-6043, ISSN 1744-683X Editor: Royal Society of Chemistry DOI: 10.1039/c9sm00558g Nonequilibrium Theory of Epigenomic Microphase Separation in the Cell Nucleus Autores: Davide Michieletto, Davide Colì, Davide Marenduzzo, Enzo Orlandini Publicado en: Physical Review Letters, Issue 123/22, 2019, ISSN 0031-9007 Editor: American Physical Society DOI: 10.1103/physrevlett.123.228101 Magnetic polymer models for epigenetics-driven chromosome folding Autores: Davide Colì, Enzo Orlandini, Davide Michieletto, Davide Marenduzzo Publicado en: Physical Review E, Issue 100/5, 2019, ISSN 2470-0045 Editor: American Physical Society DOI: 10.1103/physreve.100.052410 Transcriptional Bursts in a Nonequilibrium Model for Gene Regulation by Supercoiling Autores: Marco Ancona, Alessandro Bentivoglio, Chris A. Brackley, Giuseppe Gonnella, Davide Marenduzzo Publicado en: Biophysical Journal, Issue 117/2, 2019, Page(s) 369-376, ISSN 0006-3495 Editor: Biophysical Society DOI: 10.1016/j.bpj.2019.04.023 Polymer Modeling Predicts Chromosome Reorganization in Senescence Autores: Michael Chiang, Davide Michieletto, Chris A. Brackley, Nattaphong Rattanavirotkul, Hisham Mohammed, Davide Marenduzzo, Tamir Chandra Publicado en: Cell Reports, Issue 28/12, 2019, Page(s) 3212-3223.e6, ISSN 2211-1247 Editor: Cell Press DOI: 10.1016/j.celrep.2019.08.045 Nucleosome positions alone can be used to predict domains in yeast chromosomes Autores: Oliver Wiese, Davide Marenduzzo, Chris A. Brackley Publicado en: Proceedings of the National Academy of Sciences, Issue 116/35, 2019, Page(s) 17307-17315, ISSN 0027-8424 Editor: National Academy of Sciences DOI: 10.1073/pnas.1817829116 Non-equilibrium effects of molecular motors on polymers Autores: M. Foglino, E. Locatelli, C. A. Brackley, D. Michieletto, C. N. Likos, D. Marenduzzo Publicado en: Soft Matter, Issue 15/29, 2019, Page(s) 5995-6005, ISSN 1744-683X Editor: Royal Society of Chemistry DOI: 10.1039/c9sm00273a Transcription-driven genome organization: a model for chromosome structure and the regulation of gene expression tested through simulations Autores: Peter R Cook, Davide Marenduzzo Publicado en: Nucleic Acids Research, Issue 46/19, 2018, Page(s) 9895-9906, ISSN 0305-1048 Editor: Oxford University Press DOI: 10.1093/nar/gky763 Plectoneme dynamics and statistics in braided polymers Autores: Giada Forte, Michele Caraglio, Davide Marenduzzo, Enzo Orlandini Publicado en: Physical Review E, Issue 99/5, 2019, ISSN 2470-0045 Editor: American Physical Society DOI: 10.1103/physreve.99.052503 Chromosome compaction and chromatin stiffness enhance diffusive loop extrusion by slip-link proteins Autores: A. Bonato, C. A. Brackley, J. Johnson, D. Michieletto, D. Marenduzzo Publicado en: Soft Matter, Issue 16/9, 2020, Page(s) 2406-2414, ISSN 1744-683X Editor: Royal Society of Chemistry DOI: 10.1039/c9sm01875a Buscando datos de OpenAIRE... Se ha producido un error en la búsqueda de datos de OpenAIRE No hay resultados disponibles
