Competition of coarsening and shredding of clusters in a driven diffusive lattice gas

We investigate a driven diffusive lattice gas model with two oppositely moving species of particles. The model is motivated by bi-directional traffic of ants on a pre-existing trail. A third species, corresponding to pheromones used by the ants for communication, is not conserved and mediates interactions between the particles. Here we study the spatio-temporal organization of the particles. In the uni-directional variant of this model it is known to be determined by the formation and coarsening of ``loose clusters''. For our bi-directional model, we show that the interaction of oppositely moving clusters is essential. In the late stages of evolution the cluster size oscillates because of a competition between their `shredding' during encounters with oppositely moving counterparts and subsequent "coarsening" during collision-free evolution. We also establish a nontrivial dependence of the spatio-temporal organization on the system size

More security or less insecurity

We depart from the conventional quest for ‘Completely Secure Systems’ and ask ‘How can we be more Secure’. We draw heavily from the evolution of the Theory of Justice and the arguments against the institutional approach to Justice. Central to our argument is the identification of redressable insecurity, or weak links. Our contention is that secure systems engineering is not really about building perfectly secure systems but about redressing manifest insecurities.Final Accepted Versio

Dynamic instability of microtubules: effect of catastrophe-suppressing drugs

Microtubules are stiff filamentary proteins that constitute an important component of the cytoskeleton of cells. These are known to exhibit a dynamic instability. A steadily growing microtubule can suddenly start depolymerizing very rapidly; this phenomenon is known as ``catastrophe''. However, often a shrinking microtubule is ``rescued'' and starts polymerizing again. Here we develope a model for the polymerization-depolymerization dynamics of microtubules in the presence of {\it catastrophe-suppressing drugs}. Solving the dynamical equations in the steady-state, we derive exact analytical expressions for the length distributions of the microtubules tipped with drug-bound tubulin subunits as well as those of the microtubules, in the growing and shrinking phases, tipped with drug-free pure tubulin subunits. We also examine the stability of the steady-state solutions.Comment: Minor corrections; final published versio

Collective traffic-like movement of ants on a trail: dynamical phases and phase transitions

The traffic-like collective movement of ants on a trail can be described by a stochastic cellular automaton model. We have earlier investigated its unusual flow-density relation by using various mean field approximations and computer simulations. In this paper, we study the model following an alternative approach based on the analogy with the zero range process, which is one of the few known exactly solvable stochastic dynamical models. We show that our theory can quantitatively account for the unusual non-monotonic dependence of the average speed of the ants on their density for finite lattices with periodic boundary conditions. Moreover, we argue that the model exhibits a continuous phase transition at the critial density only in a limiting case. Furthermore, we investigate the phase diagram of the model by replacing the periodic boundary conditions by open boundary conditions.Comment: 8 pages, 6 figure

Simulation of waste heat recovery system with fuzzy based evaporator model

The organic Rankine cycle (ORC) is one of the promising waste heat recovery (WHR) technologies used to improve the thermal efficiency, reduce the emissions and save the fuel costs of internal combustion engines. In the ORCWHR system, the evaporator is considered to be the most critical component as the heat transfer of this device influences the efficiency of the system. Although the conventional Finite Volume (FV) model can successfully capture the complex heat transfer process in the evaporator, the computation time for this model is high as it consists of many iterative loops. To reduce the computation time, a new evaporator model using the fuzzy inference technique is developed in this research. The developed fuzzy based model can predict the evaporator outputs with an accuracy of over 90% while it reduces the simulation time significantly. This model is then integrated with other components of the ORC to simulate a completed ORC-WHR system for internal combustion engines. The influence of operating parameters on the performance of the WHR system is investigated in this paper

Distribution of dwell times of a ribosome: effects of infidelity, kinetic proofreading and ribosome crowding

Ribosome is a molecular machine that polymerizes a protein where the sequence of the amino acid residues, the monomers of the protein, is dictated by the sequence of codons (triplets of nucleotides) on a messenger RNA (mRNA) that serves as the template. The ribosome is a molecular motor that utilizes the template mRNA strand also as the track. Thus, in each step the ribosome moves forward by one codon and, simultaneously, elongates the protein by one amino acid. We present a theoretical model that captures most of the main steps in the mechano-chemical cycle of a ribosome. The stochastic movement of the ribosome consists of an alternating sequence of pause and translocation; the sum of the durations of a pause and the following translocation is the time of dwell of the ribosome at the corresponding codon. We derive the analytical expression for the distribution of the dwell times of a ribosome in our model. Whereever experimental data are available, our theoretical predictions are consistent with those results. We suggest appropriate experiments to test the new predictions of our model, particularly, the effects of the quality control mechanism of the ribosome and that of their crowding on the mRNA track.Comment: This is an author-created, un-copyedited version of an article accepted for publication in Physical Biology. IOP Publishing Ltd is not responsible for any errors or omissions in this version of the manuscript or any version derived from it. The definitive publisher authenticated version is available online at DOI:10.1088/1478-3975/8/2/02600

Micellar Aggregates of Gemini Surfactants: Monte Carlo Simulation of a Microscopic Model

We propose a "microscopic" model of gemini surfactants in aqueous solution. Carrying out extensive Monte Carlo simulations, we study the variation of the critical micellar concentration (CMC) of these model gemini surfactants with the variation of the (a) length of the spacer connecting the two hydrophilic heads, (b) length of the hydrophobic tail and (c) the bending rigidity of the hydrocarbon chains forming the spacer and the tail; some of the trends of variation are counter-intuitive but are in excellent agreement with the available experimental results. Our simulations also elucidate the dependence of the shapes of the micellar aggregates and the magnitude of the CMC on the geometrical shape and size of the surfactant molecules and the electrical charge on the hydrophilic heads

Calibrated quantum thermometry in cavity optomechanics

Cavity optomechanics has achieved the major breakthrough of the preparation and observation of macroscopic mechanical oscillators in peculiarly quantum states. The development of reliable indicators of the oscillator properties in these conditions is important also for applications to quantum technologies. We compare two procedures to infer the oscillator occupation number, minimizing the necessity of system calibrations. The former starts from homodyne spectra, the latter is based on the measurement of the motional sidebands asymmetry in heterodyne spectra. Moreover, we describe and discuss a method to control the cavity detuning, that is a crucial parameter for the accuracy of the latter, intrinsically superior procedure