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Localisation of DivIVA by targeting to negatively curved membranes
It is shown that DivIVA binds to liposomes, and that the N terminus harbours the membrane targeting sequence, which may explain whyDivIVA localises at cell division sites and cell poles.
Global Patterns of Groundwater Table Depth
Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization
- C. Brackley, Stephen Taylor, A. Papantonis, P. Cook, D. Marenduzzo
- BiologyProceedings of the National Academy of Sciences
- 3 September 2013
Molecular dynamics simulations are used to simulate reversible binding of proteins to DNA and uncover an unexpected force driving DNA compaction and protein aggregation that is driven by an entropic bridging-induced attraction that minimizes bending and looping penalties in the template.
Simulated binding of transcription factors to active and inactive regions folds human chromosomes into loops, rosettes and topological domains
- C. Brackley, James D. Johnson, S. Kelly, P. Cook, D. Marenduzzo
- BiologyNucleic acids research
- 8 April 2016
A fitting-free, minimal model: bivalent or multivalent red and green ‘transcription factors’ bind to cognate sites in strings of beads to form molecular bridges stabilizing loops that proves to be a robust, simple and generic force able to organize interphase chromosomes at all scales.
Arrested phase separation in reproducing bacteria creates a generic route to pattern formation
- M. Cates, D. Marenduzzo, I. Pagonabarraga, J. Tailleur
- PhysicsProceedings of the National Academy of Sciences
- 4 January 2010
A mathematical model of the formation of patterns strikingly similar to some of those believed to result from chemotactic behavior is formulated in a case involving run-and-tumble bacteria and makes connections with a wider class of mechanisms for density-dependent motility.
Continuum theory of phase separation kinetics for active Brownian particles.
- Joakim Stenhammar, A. Tiribocchi, R. Allen, D. Marenduzzo, M. Cates
- PhysicsPhysical review letters
- 16 July 2013
An accurate continuum theory is presented for the dynamics of phase-separating ABPs, derived by direct coarse graining, capturing leading-order density gradient terms alongside an effective bulk free energy.
Steady-state hydrodynamic instabilities of active liquid crystals: hybrid lattice Boltzmann simulations.
- D. Marenduzzo, E. Orlandini, M. Cates, J. Yeomans
- PhysicsPhysical review. E, Statistical, nonlinear, and…
- 15 August 2007
We report hybrid lattice Boltzmann (HLB) simulations of the hydrodynamics of an active nematic liquid crystal sandwiched between confining walls with various anchoring conditions. We confirm the…
Entropic organization of interphase chromosomes
Nonspecific forces, in addition to biophysical properties, lead to the careful arrangement of chromosomes in the nucleus.
HMGB2 Loss upon Senescence Entry Disrupts Genomic Organization and Induces CTCF Clustering across Cell Types.
Pattern formation in self-propelled particles with density-dependent motility.
- F. D. Farrell, M. Marchetti, D. Marenduzzo, J. Tailleur
- PhysicsPhysical review letters
- 3 February 2012
It is shown that interactions lead generically to the formation of a host of patterns, including moving clumps, active lanes, and asters, which could explain many of the patterns seen in recent experiments and simulations.