Search results for "computer simulation"
showing 10 items of 1054 documents
Structural analyses of a hypothetical minimal metabolism
2007
By integrating data from comparative genomics and large-scale deletion studies, we previously proposed a minimal gene set comprising 206 protein-coding genes. To evaluate the consistency of the metabolism encoded by such a minimal genome, we have carried out a series of computational analyses. Firstly, the topology of the minimal metabolism was compared with that of the reconstructed networks from natural bacterial genomes. Secondly, the robustness of the metabolic network was evaluated by simulated mutagenesis and, finally, the stoichiometric consistency was assessed by automatically deriving the steady-state solutions from the reaction set. The results indicated that the proposed minimal …
Distortion of symmetrical introgression in a hybrid zone: evidence for locus-specific selection and uni-directional range expansion
2006
The fate of species integrity upon natural hybridization depends on the interaction between selection and dispersal. The relative significance of these processes may be studied in the initial phase of contact before selection and gene flow reach equilibrium. Here we study a hybrid zone of two salamander species, Lyciasalamandra antalyana and Lyciasalamandra billae, at the initial phase of hybridization. We quantify the degree and mode of introgression using nuclear and mtDNA markers. The hybrid zone can be characterized as an abrupt transition zone, the central hybrid zone being only c. 400 m, but introgressed genes were traced up to 3 km. Introgression was traced in both sexes but gene flo…
Metabolic Networks of Sodalis glossinidius: A Systems Biology Approach to Reductive Evolution
2012
BackgroundGenome reduction is a common evolutionary process affecting bacterial lineages that establish symbiotic or pathogenic associations with eukaryotic hosts. Such associations yield highly reduced genomes with greatly streamlined metabolic abilities shaped by the type of ecological association with the host. Sodalis glossinidius, the secondary endosymbiont of tsetse flies, represents one of the few complete genomes available of a bacterium at the initial stages of this process. In the present study, genome reduction is studied from a systems biology perspective through the reconstruction and functional analysis of genome-scale metabolic networks of S. glossinidius.ResultsThe functiona…
Experimental and numerical investigations on the effect of fracture geometry and fracture aperture distribution on flow and solute transport in natur…
2018
The impact of fracture geometry and aperture distribution on fluid movement and on non-reactive solute transport was investigated experimentally and numerically in single fractures. For this purpose a hydrothermally altered and an unaltered granite drill core with axial fractures were investigated. Using three injection and three extraction locations at top and bottom of the fractured cores, different dipole flow fields were examined. The conservative tracer (Amino-G) breakthrough curves were measured using fluorescence spectroscopy. Based on 3-D digital data obtained by micro-computed tomography 2.5-D numerical models were generated for both fractures by mapping the measured aperture distr…
Hybrid WENO schemes for polydisperse sedimentation models
2015
International audience; Polydisperse sedimentation models can be described by a strongly coupled system of conservation laws for the concentration of each species of solids. Typical solutions for the sedimentation model considered for batch settling in a column include stationary kinematic shocks separating layers of sediment of different composition. This phenomenon, known as segregation of species, is a specially demanding task for numerical simulation due to the need of accurate numerical simulations. Very high-order accurate solutions can be constructed by incorporating characteristic information, available due to the hyperbolicity analysis made in Donat and Mulet [A secular equation fo…
Mathematical modeling of fetal limb growth
1989
Using ultrasound measurements of the femur, tibia, humerus, radius (N = 515), and fibula and ulna (N = 385) from normal fetuses between 12 and 40 completed weeks of gestation, growth models were determined for each bone by computer analysis. On the basis of residual analysis, growth of fetal limb bones could best be expressed as a function of tangens hyperbolicus. Growth profiles and growth data are shown with 5th, 10th, 50th, 90th, and 95th percentiles. These results are compared with previous investigations of limb bone measurements.
Modeling of the process of moisture loss during the storage of dried apricots
2011
[EN] Moisture content is a reference parameter for dried food because the growth of most microorganisms is inhibited below certain water activity levels. In addition, it has a determining influence on the evolution of important parameters, such as color and flavor, and on other properties and deterioration reactions, such as texture, oxidation processes and nutritional value. During the storage of some dried fruits, moisture is produced due to Maillard reactions and exchanged with the surrounding environment through the packaging. The evolution of dried foods during their shelf life depends on the storage conditions. The aim of this study is to analyze the evolution of the moisture content …
SIMULATING DEMOGRAPHY AND HUMAN DEVELOPMENT DYNAMICS
2014
[EN] A deterministic/stochastic model in which the demographic and the well-being subsystems of a country are involved and related is presented as a way to approach human development. The demographic subsystem is a side-by-side, single-gender, age-structured population dynamic model. The well-being subsystem states the dynamics of the United Nations Hybrid Human Development Index. The model has been validated in the case of Spain and Belgium. Some simulations have been performed with the model for the case of Spain in the 2009-2020 period to determine strategies and scenarios that could increase the life expectancy at birth per gender. Copyright © 2014 Taylor & Francis Group, LLC.
Ab initio determination of the electron affinities of DNA and RNA nucleobases
2008
High-level quantum-chemical ab initio coupled-cluster and multiconfigurational perturbation methods have been used to compute the vertical and adiabatic electron affinities of the five canonical DNA and RNA nucleobases: uracil, thymine, cytosine, adenine, and guanine. The present results aim for the accurate determination of the intrinsic electron acceptor properties of the isolated nucleic acid bases as described by their electron affinities, establishing an overall set of theoretical reference values at a level not reported before and helping to rule out less reliable theoretical and experimental data and to calibrate theoretical strategies. Daniel.Roca@uv.es Manuela.Merchan@uv.es Luis.Se…
Dosimetric perturbations of a lead shield for surface and interstitial high-dose-rate brachytherapy.
2014
In surface and interstitial high-dose-rate brachytherapy with either (60)Co, (192)Ir, or (169)Yb sources, some radiosensitive organs near the surface may be exposed to high absorbed doses. This may be reduced by covering the implants with a lead shield on the body surface, which results in dosimetric perturbations. Monte Carlo simulations in Geant4 were performed for the three radionuclides placed at a single dwell position. Four different shield thicknesses (0, 3, 6, and 10 mm) and three different source depths (0, 5, and 10 mm) in water were considered, with the lead shield placed at the phantom surface. Backscatter dose enhancement and transmission data were obtained for the lead shields…