| Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization CA Brackley, S Taylor, A Papantonis, PR Cook, D Marenduzzo Proceedings of the National Academy of Sciences 110 (38), E3605-E3611, 2013 | 189 | 2013 |
| Simulated binding of transcription factors to active and inactive regions folds human chromosomes into loops, rosettes and topological domains CA Brackley, J Johnson, S Kelly, PR Cook, D Marenduzzo Nucleic acids research 44 (8), 3503-3512, 2016 | 148 | 2016 |
| HMGB2 loss upon senescence entry disrupts genomic organization and induces CTCF clustering across cell types A Zirkel, M Nikolic, K Sofiadis, JP Mallm, CA Brackley, H Gothe, ... Molecular cell 70 (4), 730-744. e6, 2018 | 134 | 2018 |
| Nonequilibrium chromosome looping via molecular slip links CA Brackley, J Johnson, D Michieletto, AN Morozov, M Nicodemi, ... Physical review letters 119 (13), 138101, 2017 | 101 | 2017 |
| Predicting the three-dimensional folding of cis-regulatory regions in mammalian genomes using bioinformatic data and polymer models CA Brackley, JM Brown, D Waithe, C Babbs, J Davies, JR Hughes, ... Genome Biology 17 (1), 1-16, 2016 | 97 | 2016 |
| Polymer simulations of heteromorphic chromatin predict the 3D folding of complex genomic loci A Buckle, CA Brackley, S Boyle, D Marenduzzo, N Gilbert Molecular cell 72 (4), 786-797. e11, 2018 | 93 | 2018 |
| Intracellular facilitated diffusion: searchers, crowders, and blockers CA Brackley, ME Cates, D Marenduzzo Physical review letters 111 (10), 108101, 2013 | 78 | 2013 |
| Ephemeral protein binding to DNA shapes stable nuclear bodies and chromatin domains CA Brackley, B Liebchen, D Michieletto, F Mouvet, PR Cook, ... Biophysical journal 112 (6), 1085-1093, 2017 | 62 | 2017 |
| Facilitated diffusion on mobile DNA: configurational traps and sequence heterogeneity CA Brackley, ME Cates, D Marenduzzo Physical review letters 109 (16), 168103, 2012 | 59 | 2012 |
| The dynamics of supply and demand in mRNA translation CA Brackley, MC Romano, M Thiel PLoS Computational Biology 7 (10), e1002203, 2011 | 58 | 2011 |
| Exploiting native forces to capture chromosome conformation in mammalian cell nuclei L Brant, T Georgomanolis, M Nikolic, CA Brackley, P Kolovos, ... Molecular Systems Biology 12 (12), 891, 2016 | 52 | 2016 |
| Polymer modeling predicts chromosome reorganization in senescence M Chiang, D Michieletto, CA Brackley, N Rattanavirotkul, H Mohammed, ... Cell reports 28 (12), 3212-3223. e6, 2019 | 49 | 2019 |
| A max-plus model of ribosome dynamics during mRNA translation CA Brackley, DS Broomhead, MC Romano, M Thiel Journal of Theoretical Biology 303, 128-140, 2012 | 46 | 2012 |
| Mechanistic modeling of chromatin folding to understand function CA Brackey, D Marenduzzo, N Gilbert NATURE METHODS 17 (6), 643-643, 2020 | 45 | 2020 |
| Extrusion without a motor: a new take on the loop extrusion model of genome organization CA Brackley, J Johnson, D Michieletto, AN Morozov, M Nicodemi, ... Nucleus 9 (1), 95-103, 2018 | 43 | 2018 |
| Stochastic model of supercoiling-dependent transcription CA Brackley, J Johnson, A Bentivoglio, S Corless, N Gilbert, G Gonnella, ... Physical review letters 117 (1), 018101, 2016 | 39 | 2016 |
| Models for twistable elastic polymers in Brownian dynamics, and their implementation for LAMMPS CA Brackley, AN Morozov, D Marenduzzo The Journal of chemical physics 140 (13), 04B603_1, 2014 | 37 | 2014 |
| Random fluctuations of the firing rate function in a continuum neural field model CA Brackley, MS Turner Physical Review E 75 (4), 041913, 2007 | 36 | 2007 |
| A simple model for DNA bridging proteins and bacterial or human genomes: bridging-induced attraction and genome compaction J Johnson, CA Brackley, PR Cook, D Marenduzzo Journal of Physics: Condensed Matter 27 (6), 064119, 2015 | 35 | 2015 |
| Nucleosome positions alone can be used to predict domains in yeast chromosomes O Wiese, D Marenduzzo, CA Brackley Proceedings of the National Academy of Sciences 116 (35), 17307-17315, 2019 | 25 | 2019 |
Davide MichielettoRoyal Society University Research Fellow, University of EdinburghVerified email at ed.ac.uk
