A Comparison of Numerical Methods used for\ud Finite Element Modelling of Soft Tissue\ud Deformation

Soft tissue deformation is often modelled using incompressible nonlinear elasticity, with solutions computed using the finite element method. There are a range of options available when using the finite element method, in particular, the polynomial degree of the basis functions used for interpolating position and pressure, and the type of element making up the mesh. We investigate the effect of these choices on the accuracy of the computed solution, using a selection of model problems motivated by typical deformations seen in soft tissue modelling. We set up model problems with discontinuous material properties (as is the case for the breast), steeply changing gradients in the body force (as found in contracting cardiac tissue), and discontinuous first derivatives in the solution at the boundary, caused by a discontinuous applied force (as in the breast during mammography). We find that the choice of pressure basis functions are vital in the presence of a material interface, higher-order schemes do not perform as well as may be expected when there are sharp gradients, and in general that it is important to take the expected regularity of the solution into account when choosing a numerical scheme

Chaste: an open source C++ library for computational physiology and biology

Chaste - Cancer, Heart And Soft Tissue Environment - is an open source C++ library for the computational simulation of mathematical models developed for physiology and biology. Code development has been driven by two initial applications: cardiac electrophysiology and cancer development. A large number of cardiac electrophysiology studies have been enabled and performed, including high performance computational investigations of defibrillation on realistic human cardiac geometries. New models for the initiation and growth of tumours have been developed. In particular, cell-based simulations have provided novel insight into the role of stem cells in the colorectal crypt. Chaste is constantly evolving and is now being applied to a far wider range of problems. The code provides modules for handling common scientific computing components, such as meshes and solvers for ordinary and partial differential equations (ODEs/PDEs). Re-use of these components avoids the need for researchers to "re-invent the wheel" with each new project, accelerating the rate of progress in new applications. Chaste is developed using industrially-derived techniques, in particular test-driven development, to ensure code quality, re-use and reliability. In this article we provide examples that illustrate the types of problems Chaste can be used to solve, which can be run on a desktop computer. We highlight some scientific studies that have used or are using Chaste, and the insights they have provided. The source code, both for specific releases and the development version, is available to download under an open source Berkeley Software Distribution (BSD) licence at http://www.cs.ox.ac.uk/chaste, together with details of a mailing list and links to documentation and tutorials

Small cell variant of anaplastic large cell lymphoma with positive immunoreactivity for CD99

A 13 year old boy presented with a huge mass on his right arm of 6 months duration. Histopathological examination revealed sheets of malignant small round blue cells with immunopositivity for LCA, CD43, CD45Ro, CD30, EMA, ALK-1 and CD99, and negativity for CD20, TdT, myogenin, myoD1, NSE, bcl-6, bcl-2 and CD10. Fluorescent In-Situ Hybridization (FISH) testing excluded the diagnosis of Ewing's sarcoma/ PNET. Pathologists need to be aware of the diagnosis of a small cell variant of ALCL, as well as of the fact that CD99 expression commonly occurs in cases of ALK-positive ALCL, in order to distinguish this entity from Ewing's sarcoma/PNET

Dielectric and conductivity relaxation in mixtures of glycerol with LiCl

We report a thorough dielectric characterization of the alpha relaxation of glass forming glycerol with varying additions of LiCl. Nine salt concentrations from 0.1 - 20 mol% are investigated in a frequency range of 20 Hz - 3 GHz and analyzed in the dielectric loss and modulus representation. Information on the dc conductivity, the dielectric relaxation time (from the loss) and the conductivity relaxation time (from the modulus) is provided. Overall, with increasing ion concentration, a transition from reorientationally to translationally dominated behavior is observed and the translational ion dynamics and the dipolar reorientational dynamics become successively coupled. This gives rise to the prospect that by adding ions to dipolar glass formers, dielectric spectroscopy may directly couple to the translational degrees of freedom determining the glass transition, even in frequency regimes where usually strong decoupling is observed.Comment: 8 pages, 7 figure

Recursos fitogenéticos: bases para un futuro resiliente al clima y libre de hambre en el Caribe

En toda la región Caribe, el cambio climático no solamente planteará desafíos sino también una amplia gama de oportunidades, que ofrecen mayor importancia a la riqueza de recursos fitogenéticos de la región. Materializar el potencial de estos recursos para contribuir a garantizar la seguridad alimentaria y crear sistemas agrícolas más resilientes frente al cambio climático requerirá de una mayor cooperación regional. Los objetivos centrales de esta cooperación deberán ser: desarrollar intervenciones oportunas en las fronteras nacionales que mejoren la colecta, conservación y el intercambio de los recursos fitogenéticos

Plant genetic resources: foundations for a food-secure and climate-resilient future in the Caribbean

Across the Caribbean, climate change will bring about not only challenges but also a wide array of opportunities, which lend greater significance to the region’s wealth of plant genetic resources. Realizing the potential of those resources to help ensure food security and build more-resilient agricultural systems in the face of climate change will require stronger regional cooperation. Its central aims should be to develop timely interventions across national borders that improve the collection, conservation, and sharing of plant genetic resources

Assessment of awareness and knowledge of hepatitis B among the residents of Puchong, Malaysia

Purpose: To assess the level of awareness and knowledge of Hepatitis B infection in the selected area of Puchong, Malaysia.Methods: A cross sectional study was conducted among 400 subjects (> 12 yrs of age) using validated questionnaire which was distributed and completed by the respondent from January 2013 to April 2013. The data was analyzed using the Statistical Package for Social Sciences (SPSS) software.Results: Reliability test (Cronbach’s alpha) was 0.731 and 0.912 for knowledge and awareness, respectively, in the pilot study. The results showed that there was a significant difference in the mean knowledge and awareness of the subjects among various age groups (p < 0.05), ethnic groups (p < 0.005) and educational qualifications (p < 0.005). Out of 400 subjects, 48.5 % were not aware of and 66.5 % had never taken vaccine for Hepatitis B.Conclusion: Overall, the level of awareness and knowledge of hepatitis B is low. Each of the three demographic characteristics such as age group, ethnic group and educational qualification are a predictive factor. This low level of awareness and knowledge should be improved through health education and frequent vaccination programs on Hepatitis B among the public; especially in Puchong, Malaysia.Keywords: Hepatitis B, Knowledge, Awareness, Reliability test, Survey, Vaccinatio

Unity and disunity in evolutionary sciences: Process-based analogies open common research avenues for biology and linguistics

International audienceBackgroundFor a long time biologists and linguists have been noticing surprising similarities between the evolution of life forms and languages. Most of the proposed analogies have been rejected. Some, however, have persisted, and some even turned out to be fruitful, inspiring the transfer of methods and models between biology and linguistics up to today. Most proposed analogies were based on a comparison of the research objects rather than the processes that shaped their evolution. Focusing on process-based analogies, however, has the advantage of minimizing the risk of overstating similarities, while at the same time reflecting the common strategy to use processes to explain the evolution of complexity in both fields.ResultsWe compared important evolutionary processes in biology and linguistics and identified processes specific to only one of the two disciplines as well as processes which seem to be analogous, potentially reflecting core evolutionary processes. These new process-based analogies support novel methodological transfer, expanding the application range of biological methods to the field of historical linguistics. We illustrate this by showing (i) how methods dealing with incomplete lineage sorting offer an introgression-free framework to analyze highly mosaic word distributions across languages; (ii) how sequence similarity networks can be used to identify composite and borrowed words across different languages; (iii) how research on partial homology can inspire new methods and models in both fields; and (iv) how constructive neutral evolution provides an original framework for analyzing convergent evolution in languages resulting from common descent (Sapir’s drift).ConclusionsApart from new analogies between evolutionary processes, we also identified processes which are specific to either biology or linguistics. This shows that general evolution cannot be studied from within one discipline alone. In order to get a full picture of evolution, biologists and linguists need to complement their studies, trying to identify cross-disciplinary and discipline-specific evolutionary processes. The fact that we found many process-based analogies favoring transfer from biology to linguistics further shows that certain biological methods and models have a broader scope than previously recognized. This opens fruitful paths for collaboration between the two disciplines

Good on paper: the gap between programme theory and real-world context in Pakistan's Community Midwife programme

Objective To understand why skilled birth attendance—an acknowledged strategy for reducing maternal deaths—has been effective in some settings but is failing in Pakistan and to demonstrate the value of a theory-driven approach to evaluating implementation of maternal healthcare interventions. Design Implementation research was conducted using an institutional ethnographic approach. Setting and population National programme and local community levels in Pakistan. Methods Observations, focus group discussions, and in-depth interviews were conducted with 38 Community Midwives (CMWs), 20 policymakers, 45 healthcare providers and 136 community members. A critical policy document review was conducted. National and local level data were brought together. Main outcomes Alignment of programme theory with real-world practice. Results Data revealed gaps between programme theory, assumptions and reality on the ground. The design of the programme failed to take into account: (1) the incongruity between the role of a midwife and dominant class and gendered norms that devalue such a role; (2) market and consumer behaviour that prevented CMWs from establishing private practices; (3) the complexity of public–private sector cooperation. Uniform deployment policies failed to consider existing provider density and geography. Conclusions Greater attention to programme theory and the ‘real-world’ setting during design of maternal health strategies is needed to achieve consistent results in different contexts