Computational challenges of systems biology

Progress in the study of biological systems such as the heart, brain, and liver will require computer scientists to work closely with life scientists and mathematicians. Computer science will play a key role in shaping the new discipline of systems biology and addressing the significant computational challenges it poses

Characterization of the glass transition in vitreous silica by temperature scanning small-angle X-ray scattering

The temperature dependence of the x-ray scattering in the region below the first sharp diffraction peak was measured for silica glasses with low and high OH content (GE-124 and Corning 7980). Data were obtained upon scanning the temperature at 10, 40 and 80 K/min between 400 K and 1820 K. The measurements resolve, for the first time, the hysteresis between heating and cooling through the glass transition for silica glass, and the data have a better signal to noise ratio than previous light scattering and differential thermal analysis data. For the glass with the higher hydroxyl concentration the glass transition is broader and at a lower temperature. Fits of the data to the Adam-Gibbs-Fulcher equation provide updated kinetic parameters for this very strong glass. The temperature derivative of the observed X-ray scattering matches that of light scattering to within 14%.Comment: EurophysicsLetters, in pres

In situ measurements of density fluctuations and compressibility in silica glass as a function of temperature and thermal history

In this paper, small-angle X-ray scattering measurements are used to determine the different compressibility contributions, as well as the isothermal compressibility, in thermal equilibrium in silica glasses having different thermal histories. Using two different methods of analysis, in the supercooled liquid and in the glassy state, we obtain respectively the temperature and fictive temperature dependences of the isotheraml compressibility. The values obtained in the glass and supercooled liquid states are very close to each other. They agree with previous determinations of the literature. The compressibility in the glass state slightly decreases with increasing fictive temperature. The relaxational part of the compressibility is also calculated and compared to previous determinations. We discussed the small differences between the different determinations

Semiclassical description of spin ladders

The Heisenberg spin ladder is studied in the semiclassical limit, via a mapping to the nonlinear $\sigma$ model. Different treatments are needed if the inter-chain coupling $K$ is small, intermediate or large. For intermediate coupling a single nonlinear $\sigma$ model is used for the ladder. Its predicts a spin gap for all nonzero values of $K$ if the sum $s+\tilde s$ of the spins of the two chains is an integer, and no gap otherwise. For small $K$, a better treatment proceeds by coupling two nonlinear sigma models, one for each chain. For integer $s=\tilde s$, the saddle-point approximation predicts a sharp drop in the gap as $K$ increases from zero. A Monte-Carlo simulation of a spin 1 ladder is presented which supports the analytical results.Comment: 8 pages, RevTeX 3.0, 4 PostScript figure

Topologically disordered systems at the glass transition

The thermodynamic approach to the viscosity and fragility of amorphous oxides was used to determine the topological characteristics of the disordered network-forming systems. Instead of the disordered system of atoms we considered the congruent disordered system of interconnecting bonds. The Gibbs free energy of network-breaking defects (configurons) was found based on available viscosity data. Amorphous silica and germania were used as reference disordered systems for which we found an excellent agreement of calculated and measured glass transition temperatures. We reveal that the Hausdorff dimension of the system of bonds changes from Euclidian three-dimensional below to fractal 2.55 ± 0.05-dimensional geometry above the glass transition temperature

Do divorcing couples become happier by breaking up?

Divorce is a leap in the dark. The paper investigates whether people who split up actually become happier. Using the British Household Panel Survey, we can observe an individual's level of psychological well-being in the years before and after divorce. Our results show that divorcing couples reap psychological gains from the dissolution of their marriages. Men and women benefit equally. The paper also studies the effects of bereavement, of having dependant children and of remarriage. We measure well-being by using general health questionnaire and life satisfaction scores

ModelFLOWs-app: data-driven post-processing and reduced order modelling tools

This article presents an innovative open-source software named ModelFLOWs-app, written in Python, which has been created and tested to generate precise and robust hybrid reduced order models (ROMs) fully data-driven. By integrating modal decomposition and deep learning methods in diverse ways, the software uncovers the fundamental patterns in dynamic systems. This acquired knowledge is then employed to enrich the comprehension of the underlying physics, reconstruct databases from limited measurements, and forecast the progression of system dynamics. These hybrid models combine experimental and numerical database, and serve as accurate alternatives to numerical simulations, effectively diminishing computational expenses, and also as tools for optimization and control. The ModelFLOWs-app software has demonstrated in a wide range of applications its great capability to develop reliable data-driven hybrid ROMs, highlighting its potential in understanding complex non-linear dynamical systems and offering valuable insights into various applications. This article presents the mathematical background, review some examples of applications and introduces a short tutorial of ModelFLOWs-app

Pasts and pagan practices: moving beyond Stonehenge

Theorizing the past is not restricted to archaeology and interpretations of 'past' both influence and are themselves constituted within politicized understandings of self, community and in certain instances, spirituality. 'The past in the imagination of the present' is appropriated, variously, to give meaning to the present or to justify actions and interpret experiences. Summer solstice at Stonehenge, with an estimated 21,000 celebrants in 2005, is only the most publicized appropriation (by pagans and other adherents of alternative spirituality and partying) of a 'sacred site'; and conflicts and negotiations occurring throughout Britain are represented in popular and academic presentations of this 'icon of Britishness'. This paper presents work from the Sacred Sites, Contested Rites/Rights Project (http://www.sacredsites.org.uk) project, a collaboration of archaeology and anthropology informed by pagan and alternative approaches and standpoints investigating and theorizing discourse and practice of heritage management and pagan site users. Whether in negotiations around the Stonehenge solstice access or in dealing with numerous other sites, boundaries between groups or discourses are not clearly drawn - discursive communities merge and re-emerge. But clearly 'past' and 'site' are increasingly important within today's Britain, even as television archaeology increases its following, and pagan numbers continue to grow.</p