Finding the optimum activation energy in DNA breathing dynamics: A Simulated Annealing approach

We demonstrate how the stochastic global optimization scheme of Simulated Annealing can be used to evaluate optimum parameters in the problem of DNA breathing dynamics. The breathing dynamics is followed in accordance with the stochastic Gillespie scheme with the denaturation zones in double stranded DNA studied as a single molecule time series. Simulated Annealing is used to find the optimum value of the activation energy for which the equilibrium bubble size distribution matches with a given value. It is demonstrated that the method overcomes even large noise in the input surrogate data.Comment: 9 pages, 4 figures, iop article package include

Low-Mass Dileptons at the CERN-SpS: Evidence for Chiral Restoration?

Using a rather complete description of the in-medium $\rho$ spectral function - being constrained by various independent experimental information - we calculate pertinent dilepton production rates from hot and dense hadronic matter. The strong broadening of the $\rho$ resonance entails a reminiscence to perturbative $q\bar q$ annihilation rates in the vicinity of the phase boundary. The application to dilepton observables in Pb(158AGeV)+Au collisions - incorporating recent information on the hadro-chemical composition at CERN-SpS energies - essentially supports the broadening scenario. Possible implications for the nature of chiral symmetry restoration are outlined.Comment: 6 pages ReVTeX including 5 eps-figure

Local simulation of singlet statistics for restricted set of measurement

The essence of Bell's theorem is that, in general, quantum statistics cannot be reproduced by local hidden variable (LHV) model. This impossibility is strongly manifested while analyzing the singlet state statistics for Bell-CHSH violations. In this work, we provide various subsets of two outcome POVMs for which a local hidden variable model can be constructed for singlet state.Comment: 2 column, 5 pages, 4 figures, new references, abstract modified, accepted in JP

Melting of antikaon condensate in protoneutron stars

We study the melting of a $K^-$ condensate in hot and neutrino-trapped protoneutron stars. In this connection, we adopt relativistic field theoretical models to describe the hadronic and condensed phases. It is observed that the critical temperature of antikaon condensation is enhanced as baryon density increases. For a fixed baryon density, the critical temperature of antikaon condensation in a protoneutron star is smaller than that of a neutron star. We also exhibit the phase diagram of a protoneutron star with a $K^-$ condensate.Comment: 17 pages including 7 figure

A microscopic description and ultrastructural characterisation of Dientamoeba fragilis: An emerging cause of human enteric disease

Dientamoeba fragilis is a pathogenic trichomonad found in the gastrointestinal tract of humans and is implicated as a cause of diarrhoea. Despite its discovery over a century ago, there has been no recent thorough description of this parasite by microscopy. Scanning electron microscopy, transmission electron microscopy, confocal and light microscopy were therefore used to characterise D. fragilis populations growing in xenic culture. Two different populations - smooth and ruffled cells - were identifiable by scanning electron microscopy. No flagella, pelta structures, undulating membrane or pseudocyst-like forms were present. The organelles in D. fragilis were analysed by transmission electron microscopy; like Trichomonas and Histomonas, D. fragilis contains hydrogenosomes that presumably represent the site of anaerobic respiration. The nuclear morphology of D. fragilis trophozoites grown in vitro and trophozoites from clinical isolates were also compared by confocal microscopy and light microscopy. The majority of cells grown in culture were mononucleate while most cells in permanent stained faecal smears were binucleate. The two nuclei of D. fragilis are morphologically indistinguishable and contain equivalent amounts of DNA as determined by DAPI staining. The approximate cell and nuclear volume of four isolates of D. fragilis were measured and shown to be comparable to other trichomonads. In addition, the discovery of a virus-like particle is reported, to our knowledge for the first time in D. fragilis. This study therefore provides extensive and novel details of the ultrastructure of a neglected protozoan parasite that is an emerging cause of human disease. © 2011 Australian Society for Parasitology Inc

Nonequilibrium fluctuation induced escape from a metastable state

Based on a simple microscopic model where the bath is in a non-equilibrium state we study the escape from a metastable state in the over-damped limit. Making use of Fokker-Planck-Smoluchowski description we derive the time dependent escape rate in the non-stationary regime in closed analytical form which brings on to fore a strong non-exponential kinetic of the system mode.Comment: 4 pages, no figures, EPJ class file include

A case-controlled study of Dientamoeba fragilis infections in children

Dientamoeba fragilis is a pathogenic protozoan parasite that is implicated as a cause of human diarrhoea. A case-controlled study was conducted to determine the clinical signs associated with D. fragilis infection in children presenting to a Sydney Hospital. Treatment options are also discussed. Stool specimens were collected from children aged 15 years or younger and analysed for the presence of D. fragilis. In total, 41 children were included in the study along with a control group. Laboratory diagnosis was performed by microscopy of permanently stained, fixed faecal smears and by real-time PCR. Gastrointestinal symptoms were present in 40/41 (98%) of these children with dientamoebiasis, with diarrhoea (71%) and abdominal pain (29%) the most common clinical signs. Chronic gastrointestinal symptoms were present in 2% of cases. The most common anti-microbial used for treatment was metronidazole (n=41), with complete resolution of symptoms and clearance of parasite occurring in 85% of cases. A treatment failure rate occurred in 15% of those treated with metronidazole. Follow-up treatment comprised of an additional course of metronidazole or iodoquinol was needed in order to achieve complete resolution of infection and symptoms in this group. This study demonstrates the pathogenic potential of D. fragilis in children and as such it is recommended that all laboratories must routinely test for this organism and treat if detected. © Cambridge University Press 2011