Scaling in a continuous time model for biological aging

In this paper we consider a generalization to the asexual version of the Penna model for biological aging, where we take a continuous time limit. The genotype associated to each individual is an interval of real numbers over which Dirac $\delta$--functions are defined, representing genetically programmed diseases to be switched on at defined ages of the individual life. We discuss two different continuous limits for the evolution equation and two different mutation protocols, to be implemented during reproduction. Exact stationary solutions are obtained and scaling properties are discussed.Comment: 10 pages, 6 figure

Macroturbulent Instability of the Flux Line Lattice in Anisotropic Superconductors

A theory of the macroturbulent instability in the system containing vortices of opposite directions (vortices and antivortices) in hard superconductors is proposed. The origin of the instability is connected with the anisotropy of the current capability in the sample plane. The anisotropy results in the appearance of tangential discontinuity of the hydrodynamic velocity of vortex and antivortex motion near the front of magnetization reversal. As is known from the classical hydrodynamics of viscous fluids, this leads to the turbulization of flow. The examination is performed on the basis of the anisotropic power-law current-voltage characteristics. The dispersion equation for the dependence of the instability increment on the wave number of perturbation is obtained, solved, and analyzed analytically and numerically. It is shown that the instability can be observed even at relatively weak anisotropy.Comment: 10 pages, 5 figures, submitted to Physical Review

Modelling the influence of RKIP on the ERK signalling pathway using the stochastic process algebra PEPA

This paper examines the influence of the Raf Kinase Inhibitor Protein (RKIP) on the Extracellular signal Regulated Kinase (ERK) signalling pathway [5] through modelling in a Markovian process algebra, PEPA [11]. Two models of the system are presented, a reagent-centric view and a pathway-centric view. The models capture functionality at the level of subpathway, rather than at a molecular level. Each model affords a different perspective of the pathway and analysis. We demonstrate the two models to be formally equivalent using the timing-aware bisimulation defined over PEPA models and discuss the biological significance

Asymptotics of the Farey Fraction Spin Chain Free Energy at the Critical Point

We consider the Farey fraction spin chain in an external field $h$. Using ideas from dynamical systems and functional analysis, we show that the free energy $f$ in the vicinity of the second-order phase transition is given, exactly, by $$f \sim \frac t{\log t}-\frac1{2} \frac{h^2}t \quad \text{for} \quad h^2\ll t \ll 1 .$$ Here $t=\lambda_{G}\log(2)(1-\frac{\beta}{\beta_c})$ is a reduced temperature, so that the deviation from the critical point is scaled by the Lyapunov exponent of the Gauss map, $\lambda_G$. It follows that $\lambda_G$ determines the amplitude of both the specific heat and susceptibility singularities. To our knowledge, there is only one other microscopically defined interacting model for which the free energy near a phase transition is known as a function of two variables. Our results confirm what was found previously with a cluster approximation, and show that a clustering mechanism is in fact responsible for the transition. However, the results disagree in part with a renormalisation group treatment

Spherical Model in a Random Field

We investigate the properties of the Gibbs states and thermodynamic observables of the spherical model in a random field. We show that on the low-temperature critical line the magnetization of the model is not a self-averaging observable, but it self-averages conditionally. We also show that an arbitrarily weak homogeneous boundary field dominates over fluctuations of the random field once the model transits into a ferromagnetic phase. As a result, a homogeneous boundary field restores the conventional self-averaging of thermodynamic observables, like the magnetization and the susceptibility. We also investigate the effective field created at the sites of the lattice by the random field, and show that at the critical temperature of the spherical model the effective field undergoes a transition into a phase with long-range correlations $\sim r^{4-d}$.Comment: 29 page

We Want to Know: Eliciting Hospitalized Patients' Perspectives on Breakdowns in Care

BACKGROUND: There is increasing recognition that patients have critical insights into care experiences, including breakdowns in care. Harnessing patient perspectives for hospital improvement requires an in-depth understanding of the types of breakdowns patients identify and the impact of these events. METHODS: We interviewed a broad sample of patients during hospitalization and post discharge to elicit patient perspectives on breakdowns in care. Through an iterative process, we developed a categorization of patient-perceived breakdowns called the Patient Experience Coding Tool. RESULTS: Of 979 interviewees, 386 (39.4%) believed they had experienced at least one breakdown in care. The most common reported breakdowns involved information exchange (n = 158, 16.1%), medications (n = 120, 12.3%), delays in admission (n = 90, 9.2%), team communication (n = 65, 6.6%), providers’ manner (n = 62, 6.3%), and discharge (n = 56, 5.7%). Of the 386 interviewees who reported a breakdown, 140 (36.3%) perceived associated harm. Patient-perceived harms included physical (eg, pain), emotional (eg, distress, worry), damage to relationship with providers, need for additional care or prolonged hospital stay, and life disruption. We found higher rates of reporting breakdowns among younger (<60 years old) patients (45.4% vs 34.5%, P < 0.001), those with at least some college education (46.8% vs 32.7%, P < 0.001), and those with another person (family or friend) present during the interview or interviewed in lieu of the patient (53.4% vs 37.8%, P = 0.002). CONCLUSIONS: When asked directly, almost 4 out of 10 hospitalized patients reported a breakdown in their care. Patient-perceived breakdowns in care are frequently associated with perceived harm, illustrating the importance of detecting and addressing these events. Journal of Hospital Medicine 2017;12:603-609. © 2017 Society of Hospital Medicin

Giving the Green Light to Photochemical Uncaging of Large Biomolecules in High Vacuum

The isolation of biomolecules in a high vacuum enables experiments on fragile species in the absence of a perturbing environment. Since many molecular properties are influenced by local electric fields, here we seek to gain control over the number of charges on a biopolymer by photochemical uncaging. We present the design, modeling, and synthesis of photoactive molecular tags, their labeling to peptides and proteins as well as their photochemical validation in solution and in the gas phase. The tailored tags can be selectively cleaved off at a well-defined time and without the need for any external charge-transferring agents. The energy of a single or two green photons can already trigger the process, and it is soft enough to ensure the integrity of the released biomolecular cargo. We exploit differences in the cleavage pathways in solution and in vacuum and observe a surprising robustness in upscaling the approach from a model system to genuine proteins. The interaction wavelength of 532 nm is compatible with various biomolecular entities, such as oligonucleotides or oligosaccharides.</p

On the Origin of the Outgoing Black Hole Modes

The question of how to account for the outgoing black hole modes without drawing upon a transplanckian reservoir at the horizon is addressed. It is argued that the outgoing modes must arise via conversion from ingoing modes. It is further argued that the back-reaction must be included to avoid the conclusion that particle creation cannot occur in a strictly stationary background. The process of ``mode conversion" is known in plasma physics by this name and in condensed matter physics as ``Andreev reflection" or ``branch conversion". It is illustrated here in a linear Lorentz non-invariant model introduced by Unruh. The role of interactions and a physical short distance cutoff is then examined in the sonic black hole formed with Helium-II.Comment: 12 pages, plain latex, 2 figures included using psfig; Analogy to ``Andreev reflection" in superfluid systems noted, references and acknowledgment added, format changed to shorten tex

A new approach for the limit to tree height using a liquid nanolayer model

Liquids in contact with solids are submitted to intermolecular forces inferring density gradients at the walls. The van der Waals forces make liquid heterogeneous, the stress tensor is not any more spherical as in homogeneous bulks and it is possible to obtain stable thin liquid films wetting vertical walls up to altitudes that incompressible fluid models are not forecasting. Application to micro tubes of xylem enables to understand why the ascent of sap is possible for very high trees like sequoias or giant eucalyptus.Comment: In the conclusion is a complementary comment to the Continuum Mechanics and Thermodynamics paper. 21 pages, 4 figures. Continuum Mechanics and Thermodynamics 20, 5 (2008) to appea