Dino Osmanovic

Dino Osmanovic
University of California, Los Angeles | UCLA · Department of Mechanical and Aerospace Engineering

PhD

About

30
Publications
1,583
Reads
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392
Citations
Additional affiliations
October 2014 - present
Bar Ilan University
Position
  • PostDoc Position
October 2011 - October 2014
University College London
Position
  • PhD Student

Publications

Publications (30)
Article
Full-text available
Physically interesting behaviour can arise when soft matter is confined to nanoscale dimensions. A highly relevant biological example of such a phenomenon is the Nuclear Pore Complex (NPC) found perforating the nuclear envelope of eukaryotic cells. In the central conduit of the NPC, of [similar]30–60 nm diameter, a disordered network of proteins re...
Article
Full-text available
Polymer-coated pores play a crucial role in nucleo-cytoplasmic transport and in a number of biomimetic and nanotechnological applications. Here we present Monte Carlo and Density Functional Theory approaches to identify different collective phases of end-grafted polymers in a nanopore and to study their relative stability as a function of intermole...
Preprint
Full-text available
The standard relationships of statistical mechanics are upended my the presence of active forces. In particular, it is no longer possible to simply write down what the stationary probability of a state of such a system will be, as can be done in ordinary statistical mechanics. Moreover, it is not immediately apparent how qualitatively different not...
Article
Liquid-liquid phase separation (LLPS) is a common phenomenon underlying the formation of dynamic membraneless organelles in biological cells, which are emerging as major players in controlling cellular functions and health. The bottom-up synthesis of biomolecular liquid systems with simple constituents, like nucleic acids and peptides, is useful to...
Preprint
Full-text available
The design of chemical reaction networks (CRNs) that couple to systems that phase separate is a promising avenue towards the realization of functional materials capable of displaying controlled non-equilibrium behaviors. However, how a particular CRN would affect the behaviors of a phase separating system is difficult to fully predict theoretically...
Preprint
Phase separation of molecular condensates is emerging as a key mechanism in biology and biomaterials science. A major advantage of condensates is their capacity to form and reconfigure dynamically, generating responsive compartments that organize molecular targets and reactions in both space and time, in the absence of membranes. While condensation...
Preprint
Liquid liquid phase separation (LLPS) is a common phenomenon underlying the formation of dynamic membraneless organelles in biological cells, which are emerging as major players in controlling cellular functions and health. The bottom up synthesis of biomolecular liquid systems with simple constituents, like nucleic acids and peptides, is useful to...
Preprint
Snell's law, which encompasses both refraction and total internal reflection (TIR), provides the foundation for ray optics and all lens-based instruments, from microscopes to telescopes. Refraction results when light crosses the interface between media of different refractive index, the dimensionless number that captures how much a medium retards t...
Article
Snell's law, which encompasses both refraction and total internal reflection, provides the foundation for ray optics and all lens-based instruments, from microscopes to telescopes. Refraction results when light crosses the interface between media of different refractive index, the dimensionless number that captures how much a medium retards the pro...
Article
Certain types of active systems can be treated as an equilibrium system with excess nonconservative forces driving some of the microscopic degrees of freedom. We derive results for how many particles having both conservative and nonconservative forces will behave. Treating nonconservative forces perturbatively, we show how the probability distribut...
Preprint
Certain types of active systems can be treated as an equilibrium system with excess non-conservative forces driving some of the microscopic degrees of freedom. We derive results for how many particles interacting with each other with both conservative and non-conservative forces will behave. Treating non-conservative forces perturbatevily, we show...
Article
Full-text available
We introduce a model of chemically active particles of a multi-component fluid that can change their interactions with other particles depending on their state. Since such switching of interactions can only be maintained by the input of chemical energy, the system is inherently non-equilibrium. Focusing on a scenario where the equilibrium interacti...
Preprint
We introduce a model of chemically active particles of a multi-component fluid that can change their interactions with other particles depending on their state. Since such switching of interactions can only be maintained by the input of chemical energy, the system is inherently non-equilibrium. Focusing on a scenario where the equilibrium interacti...
Article
We study theoretically the physical properties of Rouse polymers when a subset of monomers along the backbone is subjected to an additional driving force of exponentially correlated fluctuating noise. In other words, the polymers are made up of two kinds of particle, one of which has an additional coupling to an active bath that subjects those part...
Article
Full-text available
Background: The relatively fast selection of symbiotic bacteria within hosts and the potential transmission of these bacteria across generations of hosts raise the question of whether interactions between host and bacteria support emergent adaptive capabilities beyond those of germ-free hosts. Results: To investigate possibilities for emergent a...
Preprint
Background The relatively fast selection of symbiotic bacteria within hosts and the potential transmission of these bacteria across generations of hosts raise the question of whether interactions between host and bacteria support emergent adaptive capabilities beyond those of germ-free hosts. Results To investigate possibilities for emergent adapt...
Article
Full-text available
A significant part of the proteome is composed of intrinsically-disordered proteins (IDPs). These proteins do not fold into a well-defined structure and behave like ordinary polymers. In this work we consider IDPs which have the tendency to aggregate, model them as heteropolymers that contain a small number of associating monomers and use computer...
Article
Full-text available
Current models of animal evolution focus on selection of individuals, ignoring the much faster selection of symbiotic bacteria. Here we take host-symbiont interactions into account by introducing a Population Genetics-like model of holobionts exposed to toxic stress. The stress can be alleviated by selection of resistant individuals (host and bacte...
Article
We consider how active forces modeled as non-thermal random noise affect the average dynamical properties of a Rouse polymer. As the power spectrum of the noise is not known we keep the analytical treatment as generic as possible and then present results for a few examples of active noise. We discuss the connection between our results and recent ex...
Article
The permeability barrier of nuclear pore complexes (NPCs) controls bulk nucleocytoplasmic exchange. It consists of nucleoporin domains rich in phenylalanine-glycine motifs (FG domains). As a bottom-up nanoscale model for the permeability barrier, we have used planar films produced with three different end-grafted FG domains, and quantitatively anal...
Article
We introduce a simple model to describe the interplay between specific and non-specific interactions. We study the influence of various physical factors on the static and dynamic properties of the specific interactions of our model and show that contrary to intuitive expectations, non-specific interactions can assist in the formation of specific co...
Article
Full-text available
Systems with many different interactions pose a challenge to traditional methods of statistical physics. In this paper, we develop the random bond model, which has a huge number of randomly chosen interaction parameters (quenched variables). Using heuristic arguments and Monte-Carlo simulations, we show that for any temperature there exists a suffi...
Article
Full-text available
Protein distributions measured under a broad set of conditions in bacteria and yeast exhibit a universal skewed shape, with variances depending quadratically on means. For bacteria these properties are reproduced by protein accumulation and division dynamics across generations. We present a stochastic growth-and-division model with feedback which c...
Article
Full-text available
We use molecular dynamics simulations in 2d to study multi-component fluid in the limiting case where {\it all the particles are different} (APD). The particles are assumed to interact via Lennard-Jones (LJ) potentials, with identical size parameters but their pair interaction parameters are generated at random from a uniform or from a peaked distr...
Article
Full-text available
The statistical theory of polymers tethered around the inner surface of a cylindrical channel has traditionally employed the assumption that the equilibrium density of the polymers is independent of the azimuthal coordinate. However, simulations have shown that this rotational symmetry can be broken when there are attractive interactions between th...
Article
Full-text available
The nuclear pore complex (NPC) is the gate for transport between the cell nucleus and the cytoplasm. Small molecules cross the NPC by passive diffusion, but molecules larger than ∼5 nm must bind to nuclear transport receptors to overcome a selective barrier within the NPC. Although the structure and shape of the cytoplasmic ring of the NPC are rela...
Thesis
Physically interesting behaviour can arise when soft matter is confined to nanoscale dimensions. A highly relevant biological example of such a phenomenon is the Nuclear Pore Complex (NPC), found perforating the Nuclear Envelope of all eukaryotic cells. In the central conduit of the NPC, of 30-60 nm diameter, a disordered arrangement of proteins re...
Article
Full-text available
Nuclear transport receptors (NTRs) mediate nucleocytoplasmic transport via their affinity for unstructured proteins (polymers) in the nuclear pore complex (NPC). Here, we have modeled the effect of NTRs on polymeric structure in the nanopore confinement of the NPC central conduit. The model explicitly takes into account inter- and intramolecular in...

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Projects

Projects (2)
Project
Understanding the statistical physics of systems in which all particle are different (random interactions)
Project
Understanding