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At least 1,027 records · Page 57Linked to original sources

Design of biomimetic fibrillar interfaces: 1. Making contact.

This paper explores the contact behaviour of simple fibrillar interfaces designed to mimic natural contact surfaces in lizards and insects. A simple model of bending and buckling of fibrils shows that such a structure can enhance compliance considerably. Contact experiments on poly(dimethylsiloxane) (PDMS) fibrils confirm the model predictions. Although buckling increases compliance, it also reduces adhesion by breaking contact between fibril ends and the substrate. Also, while slender fibrils are preferred from the viewpoint of enhanced compliance, their lateral collapse under the action of surface forces limits the aspect ratio achievable. We have developed a quantitative model to understand this phenomenon, which is shown to be in good agreement with experiments.

Adhesiveness↗

Parametric stability evaluation in computer experiments on the mathematical model of Drosophila control gene subnetwork.

Using the method of generalized threshold models, the problem is formulated and solved to evaluate the parametric stability of the model of a gene subnetwork controlling the early ontogenesis of the fruit fly Drosophila melanogaster. Computer experiments have been performed to test the parametric stability of the model. Quantitative evaluations have been obtained for parametric stability of the Drosophila gene subnetwork in nuclei along the embryo's anterior-posterior axis. The results of computer experiments have been compared with the previous research data on "sensitivity" of functioning regimes to random changes of the parameters in the models of prokaryotic and eukaryotic systems, namely the system controlling the lambda-phage development and the subsystem controlling the flower morphogenesis of Arabidopsis thaliana. The obtained results confirm high parametric stability of gene networks that control the development of organisms.

Animals↗

Modeling and risk assessment for Salmonella in meat and poultry.

Microbial risk assessment is rapidly becoming a well-recognized concept in the management of food- and waterborne microbial hazards. The process of conducting a risk assessment is a structured, systematic approach to integrate and evaluate information from diverse sources concerning the origin and fate of pathogens along the food chain and to determine the magnitude of public health risks. Quantitative modeling of the sources, prevalence, numbers, and behavior of food chain pathogens, such as Salmonella, and of the host/pathogen interaction and consequences are providing scientific information and insights useful for decision makers in managing the safety of the food supply.

Animals↗

Spin-dependent mechanism for diatomic ligand binding to heme.

The nature of diatomic ligand recombination in heme proteins is elucidated by using a Landau-Zener model for the electronic coupling in the recombination rate constant. The model is developed by means of explicit potential energy surfaces calculated by using density functional theory (DFT). The interaction of all possible spin states of the three common diatomic ligands, CO, NO, and O2, and high-spin heme iron is compared. The electronic coupling, rebinding barrier, and Landau-Zener force terms can be obtained and used to demonstrate significant differences among the ligands. In particular the intermediate spin states of NO (S = 32) and O2 (S = 1) are shown to be bound states. Rapid recombination occurs from these bound states in agreement with experimental data. The slower phases of O2 recombination can be explained by the presence of two higher spin states, S = 2 and S = 3, which have a small and relatively large barrier to ligand recombination, respectively. By contrast, the intermediate spin state for CO is not a bound state, and the only recombination pathway for CO involves direct recombination from the S = 2 state. This process is significantly slower according to the Landau-Zener model. Quantitative estimates of the parameters used in the rate constants provide a complete description that explains rebinding rates that range from femtoseconds to milliseconds at ambient temperature.

Carbon Monoxide↗

The alcohol paradox: a psychological model.

The paradoxical continuation of excessive drinking by chronic alcoholics despite extremely aversive personal deterioration is addressed by a two-factor theory. The theory regards the increasing stereotypy of alcohol-related behaviors as a function of: (a) primary neuropsychological impairments that result from alcohol abuse and (b) secondary fears of catastrophic failure attendant upon brain dysfunction, which leads to acquired aversions to situations that require adaptive behaviors. A schematic quantitative model of this formulation is presented that may be useful to practicing psychologists in explaining perserverative behavior in a variety of brain syndromes.

Adaptation, Psychological↗

Initial component control in disparity vergence: a model-based study.

The dual-mode theory for the control of disparity-vergence eye movements states that two components control the response to a step change in disparity. The initial component uses a motor preprogram to drive the eyes to an approximate final position. This initial component is followed by activation of a late component operating under visual feedback control that reduces residual disparity to within fusional limits. A quantitative model based on a pulse-step controller, similar to that postulated for saccadic eye movements, has been developed to represent the initial component. This model, an adaptation of one developed by Zee et al. [1], provides accurate simulations of isolated initial component movements and is compatible with the known underlying neurophysiology and existing neurophysiological data. The model has been employed to investigate the difference in dynamics between convergent and divergent movements. Results indicate that the pulse-control component active in convergence is reduced or absent from the control signals of divergence movements. This suggests somewhat different control structures of convergence versus divergence, and is consistent with other directional asymmetries seen in horizontal vergence.

Adult↗

Home range formation in wolves due to scent marking.

Social carnivores, such as wolves and coyotes, have distinct and well-defined home ranges. During the formation of these home ranges scent marks provide important cues regarding the use of space by familiar and foreign packs. Previous models for territorial pattern formation have required a den site as the organizational center around which the territory is formed. However, well-defined wolf home ranges have been known to form in the absence of a den site, and even in the absence of surrounding packs. To date, the quantitative models have failed to describe a mechanism for such a process. In this paper we propose a mechanism. It involves interaction between scent marking and movement behavior in response to familiar scent marks. We show that the model yields distinct home ranges by this new means, and that the spatial profile of these home ranges is different from those arising from the territorial interactions with den sites.

Animals↗

Time-resolved fluorescence microspectroscopy for characterizing crude oils in bulk and hydrocarbon-bearing fluid inclusions.

Time-resolved fluorescence data was collected from a series of 23 bulk crude petroleum oils and six microscopic hydrocarbon-bearing fluid inclusions (HCFI). The data was collected using a diode laser fluorescence lifetime microscope (DLFLM) over the 460-700 nm spectral range using a 405 nm excitation source. The correlation between intensity averaged lifetimes (tau) and chemical and physical parameters was examined with a view to developing a quantitative model for predicting the gross chemical composition of hydrocarbon liquids trapped in HCFI. It was found that tau is nonlinearly correlated with the measured polar and corrected alkane concentrations and that oils can be classified on this basis. However, these correlations all show a large degree of scatter, preventing accurate quantitative prediction of gross chemical composition of the oils. Other parameters such as API gravity and asphaltene, aromatic, and sulfur concentrations do not correlate well with tau measurements. Individual HCFI were analyzed using the DLFLM, and time-resolved fluorescence measurements were compared with tau data from the bulk oils. This enabled the fluid within the inclusions to be classified as either low alkane/high polar or high alkane/low polar. Within the high alkane/low polar group, it was possible to clearly discriminate HCFI from different locales and to see differences in the trapped hydrocarbon fluids from a single geological source. This methodology offers an alternative method for classifying the hydrocarbon content of HCFI and observing small variations in the trapped fluid composition that is less sensitive to fluctuations in the measurement method than fluorescence intensity based methods.

Colloids↗

Neurophysiological and computational analyses of the primate presubiculum, subiculum and related areas.

Head direction cells are described in the presubiculum of the macaque, used as a model of what is likely to be present in humans. The firing rate of these cells is a function of the head direction of the monkey, with a response that is typically 10-100 times larger to the optimal as compared to the opposite head direction. The mean half-amplitude width of the tuning of the cells was 76 degrees . The response of head direction cells in the presubiculum was not influenced by the place where the monkey was, by the 'spatial view' observed by the monkey, and also the position of the eyes in the head. The cells maintained their tuning for periods of at least several minutes when the view details were obscured or the room was darkened. This representation of head direction could be useful together with the hippocampal spatial view cells and whole body motion cells in primates in such memory and spatial functions as episodic memory and path integration. Discrete and continuous attractor networks can be combined so that they contain both object and spatial information, and thus provide a model of episodic memory. Self-organizing continuous attractor neural networks that can perform path integration from velocity signals (e.g. head direction from head rotational velocity, and place from whole body motion) are described. The role of the subiculum in the backprojection pathways from the hippocampus to the neocortex in a quantitative model of the recall of memories from the hippocampus is described.

Action Potentials↗

Designing an enzymatic oscillator: bistability and feedback controlled oscillations with glucose oxidase in a continuous flow stirred tank reactor.

The reaction of glucose with ferricyanide catalyzed by glucose oxidase from Aspergillus niger gives rise to a wide range of bistability as the flow rate is varied in a continuous flow stirred tank reactor. Oscillations in pH can be obtained by introducing a negative feedback on the autocatalytic production of H+ that drives the bistability. In our experiments, this feedback consists of an inflow of hydroxide ion at a rate that depends on [H+] in the reactor as k0[OH-]0[H+]/(K+[H+]). pH oscillations are found over a broad range of enzyme and ferricyanide concentrations, residence times (k0 (-1)), and feedback parameters. A simple mathematical model quantitatively accounts for the experimentally found oscillations.

Aspergillus niger↗

[Mechanism of the piezoelectric polarization of collagen].

Dipole structure and mobility of dipoles in helical regions of collagen macromolecules were analysed. The mechanism of shearstressed piezoelectric polarization was proposed. On the proposed model quantitative calculations were carried out; the obtained value of coefficient e14 for oriented artificial collagen film comes to an agreement with experimental meaning.

Collagen↗

[An epidemiometric model of viral hepatitis A and its use].

The mathematical model of viral hepatitis A has been developed. The model is the system of 7 boundary differential equations which describe changes occurring in the course of time in the main epidemiological groups of the population. On the basis of the proposed model quantitative experiments on the epidemiological effects of a hypothetic program of immunization at hypothetic power of infection have been carried out.

Bulgaria↗

Towards the molecular dissection of fertilization signaling: Our functional genomic/proteomic strategies.

Recent advances in DNA sequencing techniques and automated informatics has led to clarification of all genome sequence of some model organisms in a very short period. The demonstration of the first draft sequence of the human genome has prompted us to elaborate new approaches in biology, pharmacology and medicine. Such new research will focus on high throughput methods to function on collections of genes, and hopefully, on a genome-wide, quantitative modeling of the cell system as a whole. In this review article, we discuss the present status of "post genome sequencing" approaches in line with our strategies for understanding the molecular mechanism of fertilization and activation of development using the African clawed frog, Xenopus laevis, as a model system.

Animals↗

Nonlinearity in the relationship between bone Sr/Ca and diet: paleodietary implications.

Strontium in archaeological human bones is widely, almost paradigmatically, used as a measure of the relative dietary abundances of plants and meat. Quantitative modeling reveals, however, that there is not a simple proportional relationship between bone strontium and the dietary plant/meat ratio. While knowledge of specific foods and their compositions may permit accurate calculation of average bone strontium levels, knowledge of bone strontium does not inversely allow accurate calculation of specific foods. Although bone strontium quantitatively reflects the average dietary Sr/Ca ratio, it is disproportionately sensitive to high-calcium foods and can be easily affected by minor dietary constituents and culinary practices. Bone strontium, and by analogy, barium, should be seen as a reflection of the high-mineral dietary components rather than a quantitative index of trophic position.

Animals↗

Systems-level questions in Drosophila oogenesis.

This paper describes computational and experimental work on pattern formation in Drosophila egg development (oogenesis), an established experimental model for studying cell fate diversification in developing tissues. Epidermal growth factor receptor (EGFR) is a key regulator of pattern formation and morphogenesis in Drosophila oogenesis. EGFR signalling in oogenesis can be genetically manipulated and monitored at many levels, leading to large sets of heterogeneous data that enable the formulation of increasingly quantitative models of pattern formation in these systems.

Animals↗

Gastrointestinal absorption of metals.

Estimating gastrointestinal absorption remains a significant challenge in the risk assessment of metals. This presentation reviews our current understanding of the gastrointestinal absorption of lead (Pb) to illustrate physiological mechanisms involved in metal absorption, new approaches that are being applied to the problem of estimating metal absorption in humans, and issues related to integrating this information into risk assessment. Absorption of metals can be highly variable in human populations because it is influenced by a variety of factors that include the chemical form of the metal, environmental matrix in which the ingested metal is contained, gastrointestinal tract contents, diet, nutritional status, age, and, in some cases, genotype. Thus, in risk assessment models, gastrointestinal absorption is best described as a variable whose distribution is determined in part by the above multiple influences. Although we cannot expect to evaluate empirically each of the above factors in human populations, we can expect to achieve a sufficiently detailed understanding of absorption mechanisms to develop conceptual and, eventually, quantitative models of absorption that account for some aspects of individual variability. A conceptual model is presented of the physiological processes involved in the transfer of ingested metals from the lumen of the gastrointestinal tract to the blood circulation. Components of the model include delivery of the metal to the site(s) of absorption; distribution of metal among intracellular and extracellular ligands and transcellular and paracellular pathways of transfer across the gastrointestinal tract epithelium. The gastrointestinal absorption of Pb is discussed in the context of this model.

Biological Availability↗

Gastrointestinal absorption of metals.

Estimating gastrointestinal absorption remains a significant challenge in the risk assessment of metals. This presentation reviews our current understanding of the gastrointestinal absorption of lead (Pb) to illustrate physiological mechanisms involved in metal absorption, new approaches that are being applied to the problem of estimating metal absorption in humans, and issues related to integrating this information into risk assessment. Absorption of metals can be highly variable in human populations because it is influenced by a variety of factors that include the chemical form of the metal, environmental matrix in which the ingested metal is contained, gastrointestinal tract contents, diet, nutritional status, age, and, in some cases, genotype. Thus, in risk assessment models, gastrointestinal absorption is best described as a variable whose distribution is determined in part by the above multiple influences. Although we cannot expect to evaluate empirically each of the above factors in human populations, we can expect to achieve a sufficiently detailed understanding of absorption mechanisms to develop conceptual and, eventually, quantitative models of absorption that account for some aspects of individual variability. A conceptual model is presented of the physiological processes involved in the transfer of ingested metals from the lumen of the gastrointestinal tract to the blood circulation. Components of the model include delivery to the site(s) of absorption; distribution among intracellular and extracellular ligands and transcellular and paracellular pathways of transfer across the gastrointestinal tract epithelium. The gastrointestinal absorption of Pb is discussed in the context of this model.

Animals↗

Using a computer model to explore impairments of acquisition processes following ingestion of diazepam.

Hypotheses about the information processes impaired in diazepam-induced amnesia were tested by fitting the output from a computer simulation of list learning to observed serial position curves and to overt rehearsal protocols. Twenty-four subjects received an average weight-relative dosage of 0.18 mg/kg oral diazepam; 24 subjects received placebo. Immediate free recall of 16-word lists was examined at 2- and 8-s presentation times. Subjects receiving diazepam recalled significantly fewer words than placebo subjects (diazepam = 6.77 +/- 2.39 words; placebo = 9.29 +/- 1.42 words); their memory impairment was greater at the 8-s than 2-s presentation time. Tests of nonlinear regression models based on computer simulations of list learning performance were consistent with the hypothesis that diazepam reduces rehearsal capacity and disrupts the formation or utilization of contextual and inter-item associations. Among these causes of diazepam-induced amnesia, the disruption of contextual associations appears most important. The results further suggest that quantitative modeling of memory data may complement traditional methods of inferring relationships between brain processes and cognitive dysfunction in amnesic states.

Adult↗