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At least 217 records · Page 12Linked to original sources
PubMed2005

Modelling non-stationary variance in EEG time series by state space GARCH model.

We present a new approach to modelling non-stationarity in EEG time series by a generalized state space approach. A given time series can be decomposed into a set of noise-driven processes, each corresponding to a different frequency band. Non-stationarity is modelled by allowing the variances of the driving noises to change with time, depending on the state prediction error within the state space model. The method is illustrated by an application to EEG data recorded during the onset of anaesthesia.

Anesthesia↗
PubMedDate not supplied

Mobilis in mobile: a probabilistic and chronotopic model of mobility in urban spaces.

In this communication we propose an urban mobility model based on individual random walk driven by a chronotopic action with a deterministic public transportation network. In the absence of chronotopoi the mean field analytic results are found in good agreement with simulations on a computer. When the chronotopoi are switched on, they attract people according to a given law and we obtain a sort of diffusive motion. The model can describe many different kinds of dynamical systems, including biological ones. The work is in progress and the next step will be an empirical test in a concrete case.

City Planning↗
PubMed2005

Effects of housing density and cage floor space on three strains of young adult inbred mice.

Some recommendations in the Guide for the Care and Use of Laboratory Animals (the Guide) are based on best professional judgment. Our current efforts are directed toward replacement with data-driven standards. We demonstrated earlier that young adult C57BL/6J mice could be housed with half the floor space recommended in the Guide without discernable negative effects. This report extends that work by examining optimal housing densities for young adult male and female BALB/cJ, NOD/LtJ, and FVB/NJ mice. These 8-week studies were initiated with 3-week-old BALB/cJ and NOD/LtJ mice and 3- to 5-week-old FVB/NJ mice housed in three cage types. We adjusted the number of mice per cage to house them with the floor space recommended in the Guide (approximately 12 in2 [ca. 77 cm2] per mouse) down to 5.6 in2 [ca. 36 cm2] per mouse. Early-onset aggression occurred among FVB/NJ male mice housed at all densities in cages having 51.7 in2 (ca. 333 cm2) or 112.9 in2 (ca. 728 cm2) of space. FVB/NJ male mice housed in shoebox (67.6 in2 [ca. 436 cm2]) cages did not exhibit aggression until the fifth week. Urinary testosterone output was density-dependent only for BALB/cJ male mice in shoebox cages (output decreased with increasing density) and FVB/NJ male mice. We conclude that all but FVB/NJ male mice can be housed with half the floor space specified in the Guide. The aggression noted for male FVB/NJ mice may have been due to their age span, although this did not impact negatively on the female FVB/NJ mice.

Age Factors↗
PubMed1985

Radon entry into houses having a crawl space.

The transport of 222Rn from soil, through a vented crawl space, and into the living space of single-family residences was studied. Two houses were monitored in detail for periods of 5 and 7 weeks. With crawl space vents open, the average indoor 222Rn concentrations were 1.2 and 0.6 pCi 1.-1 (44 and 22 Bq m-3); with the vents sealed the averages rose to 2.2 and 1.0 pCi 1.-1 (81 and 37 Bq m-3). The data suggest that, of the Rn released into the crawl space from the soil beneath the house, a significant fraction, perhaps 50% or more, enters the living space. The effect of 3 meteorological parameters--wind speed, indoor-outdoor temperature difference, and rate of barometric pressure change--on Rn concentration and entry rate were examined. In 1 of the houses a higher temperature difference corresponded to a higher indoor concentration, suggesting that the increased infiltration rate is more than compensated by an increase in the Rn entry rate. On the other hand, a high wind speed tended to reduce the indoor concentration, presumably by increasing both cross-ventilation of the crawl space and the infiltration rate of the living space. Results suggest that Rn transport into the crawl space of at least 1 of the houses occurred by pressure-driven flow, rather than solely by molecular diffusion. The diffusion coefficient of 222Rn through polyethylene sheeting, such as was present on the ground beneath this house, was measured in the laboratory and found to range from 0.65 X 10(-7) cm2 s-1 at 11 degrees C to 1.6 X 10(-7) cm2 s-1 at 25 degrees C, implying that the maximum diffusive flux through the sheet was many times smaller than that necessary to account for the rate of Rn entry into the house. A third house was studied using a tracer gas injected into the crawl space at a controlled rate. The fraction of air leaving the crawl space that entered the living space ranged from 0.3 to 0.65, in good agreement with results for Rn transmission in the other 2 houses, assuming that the 222Rn flux into the crawl space was comparable to that which would have resulted from molecular diffusion from soil having a 222Rn diffusion length of 1.0 m. By sealing leaks in the floor of this house, the average infiltration rate was reduced by 25%, but the indoor concentration of the tracer gas remained constant.

Air Pollutants↗
PubMed2005

Periodic dynamics in a two-stage Allee effect model are driven by tension between stage equilibria.

Single species difference population models can show complex dynamics such as periodicity and chaos under certain circumstances, but usually only when rates of intrinsic population growth or other life history parameter are unrealistically high. Single species models with Allee effects (positive density dependence at low density) have also been shown to exhibit complex dynamics when combined with over-compensatory density dependence or a narrow fertility window. Here we present a simple two-stage model with Allee effects which shows large amplitude periodic fluctuations for some initial conditions, without these requirements. Periodicity arises out of a tension between the critical equilibrium of each stage, i.e. when the initial population vector is such that the adult stage is above the critical value, while the juvenile stage is below the critical value. Within this area of parameter space, the range of initial conditions giving rise to periodic dynamics is driven mainly by adult mortality rates. Periodic dynamics become more important as adult mortality increases up to a certain point, after which periodic dynamics are replaced by extinction. This model has more realistic life history parameter values than most 'chaotic' models. Conditions for periodic dynamics might arise in some marine species which are exploited (high adult mortality) leading to recruitment limitation (low juvenile density) and might be an additional source of extinction risk.

Ecosystem↗
PubMed1976

The mode of activation and regulation of glutaminase in intact kidney mitochondria.

Experiments were carried out with isolated pig renal-cortex and rat kidney mitochondria. Respiration, glutaminase activity and swelling of the mitochondria were followed by an oxygen electrode, an NH+4-sensitive electrode and spectrophotometrically. The inhibitors of the transport of glutamate (avenaciolide) and phosphate (mersalyl) across the inner mitochondrial membrane were employed. On the basis of the experimental findings we made the following conclusions: 1. There are two mechanisms by which glutamate can leave the inner space of kidney mitochondria: (a) an electrogenic efflus coupled to the respiration driven proton translocation and the presence of a membrane potential (positive outside), and (b) an electroneutral glutamate-hydroxyl exchange which is inhibited by avenaciolide and which operates in both directions. 2. The activation of glutaminase in intact mitochondria by phosphate occurs only if the activator moves across the inner mitochondrial membrane. The enzyme can be activated even when the movement of phosphate is inhibited provided that the mitochondria are energized. 3. Glutaminase is intimely associated with the inner mitochondrial membrane so that the part of the enzyme with the binding site for phosphate is embedded in the membrane, whereas the part with the binding sites for the substrate and glutamate is exposed toward the matrix space. The mechanism of allosteric activation of glutaminase and of the efflux of glutamate from mitochondria are probably the crucial factors which regulate the enzyme activity, and, consequently, renal ammoniagenesis in vivo.

Animals↗
PubMed1985

Epithelial water transport in a balanced gradient system.

The relationship between epithelial fluid transport, standing osmotic gradients, and standing hydrostatic pressure gradients has been investigated using a perturbation expansion of the governing equations. The assumptions used in the expansion are: (a) the volume of lateral intercellular space per unit volume of epithelium is small; (b) the membrane osmotic permeability is much larger than the solute permeability. We find that the rate of fluid reabsorption is set by the rate of active solute transport across lateral membranes. The fluid that crosses the lateral membranes and enters the intercellular cleft is driven longitudinally by small gradients in hydrostatic pressure. The small hydrostatic pressure in the intercellular space is capable of causing significant transmembrane fluid movement, however, the transmembrane effect is countered by the presence of a small standing osmotic gradient. Longitudinal hydrostatic and osmotic gradients balance such that their combined effect on transmembrane fluid flow is zero, whereas longitudinal flow is driven by the hydrostatic gradient. Because of this balance, standing gradients within intercellular clefts are effectively uncoupled from the rate of fluid reabsorption, which is driven by small, localized osmotic gradients within the cells. Water enters the cells across apical membranes and leaves across the lateral intercellular membranes. Fluid that enters the intercellular clefts can, in principle, exit either the basal end or be secreted from the apical end through tight junctions. Fluid flow through tight junctions is shown to depend on a dimensionless parameter, which scales the resistance to solute flow of the entire cleft relative to that of the junction. Estimates of the value of this parameter suggest that an electrically leaky epithelium may be effectively a tight epithelium in regard to fluid flow.

Animals↗
PubMed2001

Highly potent side-chain to side-chain cyclized enkephalin analogues containing a carbonyl bridge: synthesis, biology and conformation.

Six novel cyclic enkephalin analogues have been synthesized. Cyclization of the linear peptides containing basic amino acid residues in position 2 and 5 was achieved by treatment with bis(4-nitrophenyl)carbonate. It was found that some of the compounds exibit unusually high mu-opioid activity in the guinea pig ileum (GPI) assay. The 18-membered analogue cyclo(N(epsilon),N(beta)-carbonyl-D-Lys2,Dap5)-enkephalinamide turned out to be one of the most potent mu-agonists reported so far. NMR spectra of the peptides were recorded and structural parameters were determined. The conformational space was exhaustively examined for each of them using the electrostatically driven Monte Carlo method. Each peptide was finally described as an ensemble of conformations. A model of the bioactive conformation of this class of opioid peptides was proposed.

Animals↗
PubMed2005

Perilymph sampling from the cochlear apex: a reliable method to obtain higher purity perilymph samples from scala tympani.

Measurements of drug levels in the fluids of the inner ear are required to establish kinetic parameters and to determine the influence of specific local delivery protocols. For most substances, this requires cochlear fluids samples to be obtained for analysis. When auditory function is of primary interest, the drug level in the perilymph of scala tympani (ST) is most relevant, since drug in this scala has ready access to the auditory sensory cells. In many prior studies, ST perilymph samples have been obtained from the basal turn, either by aspiration through the round window membrane (RWM) or through an opening in the bony wall. A number of studies have demonstrated that such samples are likely to be contaminated with cerebrospinal fluid (CSF). CSF enters the basal turn of ST through the cochlear aqueduct when the bony capsule is perforated or when fluid is aspirated. The degree of sample contamination has, however, not been widely appreciated. Recent studies have shown that perilymph samples taken through the round window membrane are highly contaminated with CSF, with samples greater than 2microL in volume containing more CSF than perilymph. In spite of this knowledge, many groups continue to sample from the base of the cochlea, as it is a well-established method. We have developed an alternative, technically simple method to increase the proportion of ST perilymph in a fluid sample. The sample is taken from the apex of the cochlea, a site that is distant from the cochlear aqueduct. A previous problem with sampling through a perforation in the bone was that the native perilymph rapidly leaked out driven by CSF pressure and was lost to the middle ear space. We therefore developed a procedure to collect all the fluid that emerged from the perforated apex after perforation. We evaluated the method using a marker ion trimethylphenylammonium (TMPA). TMPA was applied to the perilymph of guinea pigs either by RW irrigation or by microinjection into the apical turn. The TMPA concentration of the fluid sample was compared with that measured in perilymph prior to taking the sample using a TMPA-selective microelectrode sealed into ST. Data were interpreted with a finite element model of the cochlear fluids that was used to simulate each aspect of the experiment. The correction of sample concentration back to the perilymph concentration prior to sampling can be performed based on the known ST volume (4.7microL in the guinea pig) and the sample volume. A more precise correction requires some knowledge of the profile of drug distribution along the cochlear prior to sampling. This method of sampling from the apex is technically simple and provides a larger sample volume with a greater proportion of perilymph compared to sampling through the RW.

Animals↗
PubMed2001

The role of exposure to isolated words in early vocabulary development.

Fluent speech contains no known acoustic analog of the blank spaces between printed words. Early research presumed that word learning is driven primarily by exposure to isolated words. In the last decade there has been a shift to the view that exposure to isolated words is unreliable and plays little if any role in early word learning. This study revisits the role of isolated words. The results show (a) that isolated words are a reliable feature of speech to infants, (b) that they include a variety of word types, many of which are repeated in close temporal proximity, (c) that a substantial fraction of the words infants produce are words that mothers speak in isolation, and (d) that the frequency with which a child hears a word in isolation predicts whether that word will be learned better than the child's total frequency of exposure to that word. Thus, exposure to isolated words may significantly facilitate vocabulary development at its earliest stages.

Adult↗
PubMed1981

On pattern formation mechanisms for lepidopteran wing patterns and mammalian coat markings.

The patterns on wings of Lepidoptera can be generated with a few pattern elements, but no mechanism has been suggested for producing them. I consider two of the basic patterns, namely, central symmetry and dependent patterns. A biochemically plausible model mechanism is proposed for generating major aspects of these patterns, based on a diffusing morphogen that activates a gene or colour-specific enzyme in a threshold manner to generate a stable heterogeneous spatial pattern. The model is applied to the determination stream hypothesis of Kühn & von Engelhardt (Wilhelm Roux Arch. Entw Mech. Org. 130, 660 (1933)), and results from the model compared with their microcautery experiments on the pupal wing of Ephestia kühniella. In the case of dependent patterns, results are compared with patterns on specific Papilionidae. For the same mechanism and a fixed set of parameters I demonstrate the important roles of geometry and scale on the spatial patterns obtained. The results and evidence presented here suggest the existence of diffusion fields of the order of several millimetres, which are very much larger than most embryonic fields. The existence of zones of polarizing activity is also indicated. Colour patterns on animals are considered to be genetically determined, but the mechanism is not known. I have previously suggested that a single mechanism that can exhibit an infinite variety of patterns is a candidate for that mechanism, and proposed that a reaction-diffusion system that can be diffusively driven unstable could be responsible for the laying down of the spacing patterns that generates the pre-pattern for animal coat markings. For illustrative purposes I consider, a practical reaction mechanism, which exhibits substrate inhibition, and show that the geometry and scale of the domain (part of the epidermis) play a crucial role in the structural patterns that result. Patterns are obtained for a selection of geometries, and general features are related to the coat colour distribution in the spotted Felidae, giraffe, zebra and other animals. The patterns depend on the initial conditions, but for a given geometry and scale are qualitatively similar, a positive feature of the model and a necessary model attribute in view of the pattern individuality on animals of the same species.

Animals↗
PubMed2005

Dissipation-induced symmetry breaking in a driven optical lattice.

We analyze the atomic dynamics in an ac driven periodic optical potential which is symmetric in both time and space. We experimentally demonstrate that in the presence of dissipation the symmetry is broken, and a current of atoms through the optical lattice is generated as a result.

Journal Article↗
PubMed2006

Heating of the solar corona by dissipative Alfvén solitons.

Solar photospheric convection drives myriads of dissipative Alfvén solitons (hereinafter called alfvenons) capable of accelerating electrons and ions to energies of hundreds of keV and producing the x-ray corona. Alfvenons are exact solutions of two-fluid equations for a collisionless plasma and represent natural accelerators for conversion of the electromagnetic energy flux driven by convective flows into kinetic energy of charged particles in space and astrophysical plasmas. Their properties have been experimentally verified in the magnetosphere, where they accelerate auroral electrons to tens of keV.

Journal Article↗
PubMed2005

Synchronization of rotating helices by hydrodynamic interactions.

Some types of bacteria use rotating helical flagella to swim. The motion of such organisms takes place in the regime of low Reynolds numbers where viscous effects dominate and where the dynamics is governed by hydrodynamic interactions. Typically, rotating flagella form bundles, which means that their rotation is synchronized. The aim of this study is to investigate whether hydrodynamic interactions can be at the origin of such a bundling and synchronization. We consider two stiff helices that are modelled by rigidly connected beads, neglecting any elastic deformations. They are driven by constant and equal torques, and they are fixed in space by anchoring their terminal beads in harmonic traps. We observe that, for finite trap strength, hydrodynamic interactions do indeed synchronize the helix rotations. The speed of phase synchronization decreases with increasing trap stiffness. In the limit of infinite trap stiffness, the speed is zero and the helices do not synchronize.

Bacteria↗
PubMed2026

Scalable, open-access and multidisciplinary data integration pipeline for climate-sensitive diseases.

Climate-sensitive infectious diseases pose an important challenge for human, animal and environmental health and it has been estimated that over half of known human pathogenic diseases can be aggravated by climate change. While climatic and weather conditions are important drivers of transmission of vector-borne diseases, socio-economic, behavioural, and land-use factors as well as the interactions among them impact transmission dynamics. Analysis of drivers of climate-sensitive diseases require rapid integration of interdisciplinary data to be jointly analysed with epidemiological (including genomic and clinical) data. Current tools for the integration of multiple data sources are often limited to one data type or rely on proprietary data and software. To address this gap, we develop a scalable and open-access pipeline for the integration of multiple spatio-temporal datasets that requires only the declaration of the country and temporal range and resolution of the study. The tool is locally deployable and can easily be integrated into existing climate-disease-modelling applications. We demonstrate the utility of the tool for dengue modelling in Vietnam where epidemiological data are legally required to remain local. We include a pipeline for bias correction of climate data to enhance their quality for downstream modelling tasks. The Dengue Advanced Readiness Tools-Pipeline empowers users by simplifying complex download, correction, and aggregation steps, fostering data-driven discovery of relationships between infectious diseases and their drivers in space and time, and enhancing reproducibility in research. Additional modules and datasets can be added to the existing ones to make the pipeline extendable to use cases other than the ones presented here.

automated workflows↗
PubMed2005

Contribution of canalicular glutathione efflux to bile formation. From cholestasis associated alterations to pharmacological intervention to modify bile flow.

At least one third of the bile flow is driven osmotically by the amount of hepatic glutathione excreted into canalicular spaces. Beyond the importance of this secretory mechanism for bile formation, the excretion of glutathione is an important way to discharge toxic anionic compounds deriving from liver metabolism of exogenous and endogenous substances. Thus, biliary secretion of glutathione and its conjugates really works as a major detoxification system for the hepatocytes. Derangement of hepatic and/or biliary glutathione status can occur in several experimental animal models of liver injury and in human diseases. In the present review, we will focus on mechanisms of bile glutathione efflux and changes associated with cholestatic conditions. Novel findings on the role of water channels and of the multidrug resistant proteins in bile salt-independent bile formation, will also be discussed. New routes of intervention to modify bile flow for therapeutic purposes are considered.

Animals↗
PubMed2006

The life-cycle of operons.

Operons are a major feature of all prokaryotic genomes, but how and why operon structures vary is not well understood. To elucidate the life-cycle of operons, we compared gene order between Escherichia coli K12 and its relatives and identified the recently formed and destroyed operons in E. coli. This allowed us to determine how operons form, how they become closely spaced, and how they die. Our findings suggest that operon evolution may be driven by selection on gene expression patterns. First, both operon creation and operon destruction lead to large changes in gene expression patterns. For example, the removal of lysA and ruvA from ancestral operons that contained essential genes allowed their expression to respond to lysine levels and DNA damage, respectively. Second, some operons have undergone accelerated evolution, with multiple new genes being added during a brief period. Third, although genes within operons are usually closely spaced because of a neutral bias toward deletion and because of selection against large overlaps, genes in highly expressed operons tend to be widely spaced because of regulatory fine-tuning by intervening sequences. Although operon evolution may be adaptive, it need not be optimal: new operons often comprise functionally unrelated genes that were already in proximity before the operon formed.

Bacillus subtilis↗