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At least 325 records · Page 18Linked to original sources

Transient unidirectional acoustic streaming in annular resonators.

Theoretical description of the transient process of the acoustic streaming excitation in a toroidal waveguide with driven walls is developed. Particular attention is paid to the analysis of the closed-loop (unidirectional) streaming excitation by purely propagating acoustic mode. This mode might be excited by proper phasing of the two localized acoustic sources. It is demonstrated that the evolution of the local streaming velocity can be non-monotonous in some points of the resonator cross-section. A numerical evaluation of the analytical solutions highlights the influence of the ratio of the acoustic boundary layer thickness to the waveguide width on the acoustic-streaming stabilization time. The results obtained for the acoustic streaming in the annular resonator can be useful for the analysis of the annular thermoacoustic engines and refrigerators. They might be also applied in microfluidics where there is a growing interest to different possible physical mechanisms of fluid pumping in microscale channels.

Journal Article↗

Theory of deformable substrates for cell motility studies.

Linear theory is used to relate the tractions F applied by a cell to the resulting deformation of fluid, viscoelastic, or solid substrates. The theory is used to fit data in which the motion of a fluid surface in the neighborhood of a motile keratocyte is visualized with the aid of embedded beads. The data are best fit by modeling the surface layer as a two-dimensional, nearly incompressible fluid. The data favor this model over another plausible model, the planar free boundary of a three-dimensional fluid. In the resulting diagrams for the distribution of F, it is found that both curl F and div F are concentrated in the lateral extrema of the lamellipodium. In a second investigation, a nonlinear theory of weak wrinkles in a solid substrate is proposed. The in-plane stress tensor plays the role of a metric. Compression wrinkles are found in regions where this metric is negative definite. Tension wrinkles arise, in linear approximation, at points on the boundary between positive definite and indefinite regions, and are conjectured to be stabilized by nonlinear effects. Data for the wrinkles that would be produced by keratocyte traction are computed, and these agree qualitatively with observed keratocyte wrinkles.

Animals↗

Sequence conservation in Ig-like domains: the role of highly conserved proline residues in the fibronectin type III superfamily.

The role of conserved proline residues in fibronectin type III (fnIII) domains is investigated. Surprisingly, none of the standard set of explanations for residue conservation applies. The proline residues are not apparently conserved for function, or stability, or to nucleate folding, or to promote stabilising interactions across domain boundaries. However, when the most highly conserved proline residues are mutated to alanine there is an increase in the rate of aggregation of a fnIII double-module construct. The results suggest that proline residues may be conserved at domain-domain boundaries in fnIII domains to prevent aggregation in multi-modular proteins.

Amino Acid Motifs↗

The anatomy and histology of the rotator interval capsule of the shoulder.

Forty-seven rotator interval regions from fetuses and 10 fresh-frozen rotator interval regions from adult cadavers were evaluated by gross dissection and light microscopy. Specimens from adults also were evaluated with ultrasound and magnetic resonance imaging. An analysis of 37 fetal specimens (> 14 weeks gestation) revealed two rotator interval types: Type I (9 of 37) was defined by a contiguous bridge of capsule consisting of poorly organized collagen fibers. A Type II rotator interval (28 of 37) had a complete defect covered by only a thin layer of synovium. Similar to the Type II rotator interval in the fetus, a rotator interval defect was present in six of eight specimens from adults. Histologically, the capsular tissue within the rotator interval consisted of poorly organized collagen fibers in specimens from the fetus and adult. Maximal opening of the rotator interval was seen by ultrasound with internal rotation and downward traction of the hyperextended arm in the coronal, oblique, and sagittal planes. Magnetic resonance imaging of the rotator interval region permitted anatomic evaluation. The complete absence of tissue in 28 of 37 fetuses suggests that the rotator interval defect is congenital. The authors recommend that surgeons carefully evaluate the integrity of the tissue within the rotator interval. When rotator interval closure is desired such as in patients with a persistent sulcus sign after arthroscopic stabilization, suturing the edges of more substantial tissue immediately adjacent to the boundaries of the rotator interval region would seem prudent.

Adult↗

Least-squares finite-element lattice Boltzmann method.

A new numerical model of the lattice Boltzmann method utilizing least-squares finite element in space and Crank-Nicolson method in time is presented. The new method is able to solve problem domains that contain complex or irregular geometric boundaries by using finite-element method's geometric flexibility and numerical stability, while employing efficient and accurate least-squares optimization. For the pure advection equation on a uniform mesh, the proposed method provides for fourth-order accuracy in space and second-order accuracy in time, with unconditional stability in the time domain. Accurate numerical results are presented through two-dimensional incompressible Poiseuille flow and Couette flow.

Journal Article↗

Dynamic patterns and self-knotting of a driven hanging chain.

When shaken vertically, a hanging chain displays a startling variety of distinct behaviors. We find experimentally that instabilities occur in tonguelike bands of parameter space, to swinging or rotating pendular motion, or to chaotic states. Mathematically, the dynamics are described by a nonlinear wave equation. A linear stability analysis predicts instabilities within the well-known resonance tongues; their boundaries agree very well with experiment. Full simulations of the 3D dynamics reproduce and elucidate many aspects of the experiment. The chain is also observed to tie knots in itself, some quite complex. This is beyond the reach of the current analysis and simulations.

Journal Article↗

An optimal order for ECG inverse problems with MDL.

A numerical simulation for body surface potential mapping was investigated using Boundary Element Method (B.E.M.). After forward simulation, we investigated the accuracy and stability of ECG inverse solution from the viewpoint of Minimum Description Length Principle (MDL). It became obvious that the solution containing up to 16th expansion components is optimal for ECG inverse problem.

Body Surface Potential Mapping↗

Nanometer-size alpha-PbO(2)-type TiO(2) in garnet: A thermobarometer for ultrahigh-pressure metamorphism

A high-pressure phase of titanium dioxide (TiO(2)) with an alpha-PbO(2)-type structure has been identified in garnet of diamondiferous quartzofeldspathic rocks from the Saxonian Erzgebirge, Germany. Analytical electron microscopy indicates that this alpha-PbO(2)-type TiO(2) occurred as an epitaxial nanometer-thick slab between twinned rutile bicrystals. Given a V-shaped curve for the equilibrium phase boundary of alpha-PbO(2)-type TiO(2) to rutile, the stabilization pressure of alpha-PbO(2)-type TiO(2) should be 4 to 5 gigapascals at 900 degrees to 1000 degrees C. This suggests a burial of continental crustal rocks to depths of at least 130 kilometers. The alpha-PbO(2)-type TiO(2) may be a useful pressure and temperature indicator in the diamond stability field.

Journal Article↗

The evolution of species' distributions: reciprocal transplants across the elevation ranges of Mimulus cardinalis and M. lewisii.

Every species occupies a limited geographic area, but it remains unclear why traits that limit distribution do not evolve to allow range expansion. Hypotheses for the evolutionary stability of geographic ranges assume that species are maladapted at the range boundary and unfit beyond the current range, but this assumption has rarely been tested. To examine how fitness varies across species' ranges, we reciprocally transplanted two species of monkeyflowers, Mimulus cardinalis and M. lewisii, within and beyond their present elevation ranges. We used individuals of known parentage from populations collected across the elevation ranges of both species to examine whether populations are adapted to position within the range. For both species we found the greatest average fitness at elevations central within the range, reduced fitness at the range margin, and zero or near-zero fitness when transplanted beyond their present elevation range limits. However, the underlying causes of fitness variation differed between the species. At high elevations beyond its range, M. cardinalis displayed reduced growth and fecundity, whereas at low elevations M. lewisii experienced high mortality. Weak differences in performance were observed among populations within each species and these were not related to elevation of origin. Low fitness of both species at their range margin and weak differentiation among populations within each species suggest that adaptation to the environment at and beyond the range margin is hindered, illustrating that range margins provide an interesting system in which to study limits to adaptation.

Adaptation, Biological↗

The inverse problem in electrocardiography: solutions in terms of epicardial potentials.

The objective of the inverse problem in electrocardiography is to recover noninvasively regional information about intracardiac electrical events from electrical measurements on the body surface. The choice of epicardial potentials as the solution to the inverse problem is motivated by the availability of a unique epicardial potential solution for each body surface potential distribution, by the ability to verify experimentally the inverse-recovered epicardial potentials, by the proven relationship between epicardial potentials and the details of intracardiac regional events, and by the possibility of using the inverse solution as a supplement or possible replacement to clinical epicardial potential mapping prior to surgical intervention. Although, in principle, the epicardial potential distribution can be recovered from the body surface potential distribution, the inverse problem in terms of potentials is ill-posed, and naive attempts to reconstruct the epicardial potentials result in incorrect solutions which are highly oscillatory. Large deviations from the actual solution may result from inaccuracy of the data measurement, incomplete knowledge of the potential data over the entire torso, and inaccurate description of the inhomogeneous torso volume conductor. This review begins with a mathematical and qualitative description of the inverse problem in terms of epicardial potentials. The ill-posed nature of the problem is demonstrated using a theoretical boundary value problem. Effects of inaccuracies in the body surface potential data (stability estimates) are introduced, and a sensitivity analysis of geometrical and inhomogeneity parameters is presented using an analytical eccentric spheres model. Various computational methods for relating epicardial to body surface potentials, i.e., the computation of the forward transfer matrix, are described and compared. The need for regularization of the inverse recovery of epicardial potentials, resulting from the need to invert the ill-conditioned transfer matrix, is demonstrated. Several regularization techniques are compared in terms of their performance regarding noise in the data and inaccuracies in geometry and inhomogeneities. Finally, several existing, regularized inverse procedures that compute epicardial potentials from measured body surface potential data are introduced and compared. The review concludes with a section that points toward future directions for improving the quality of the inverse-reconstructed epicardial potentials. Future directions for the use of the inverse problem to obtain epicardial potential distributions noninvasively in both experimental animals and patients in a clinical se

Animals↗

Electrorheological Kelvin-Helmholtz instability of a fluid sheet.

The present work deals with the gravitational stability of an electrified Maxwellian fluid sheet shearing under the influence of a vertical periodic electric field. The field produces surface charges on the interfaces of the fluid sheet. Due to the rather complicated nature of the problem a mathematical simplification is considered where the weak effects of viscoelastic fluids are taken into account. The solutions of the linearized equations of motion and boundary conditions lead to two simultaneous Mathieu equations with damping terms and having complex coefficients. Stability criteria are discussed through the assumption of symmetric and anti-symmetric deformations. The disappearance of surface charges from the interfaces obeys a certain relation derived in the marginal state. Furthermore, the case dealing with general deformation is discussed through marginal state analysis. The stability behavior in resonant and nonresonant cases are studied. In addition, the stability picture in the case of absence of the field frequency is studied. The numerical examination for stability showed that the relaxation time ratio plays a destabilizing influence in the case of anti-symmetric deformation or in the general deformation. The stabilizing effect for the relaxation time ratio is saved in the case of general deformation in the presence of the field frequency. In the later case the viscosity, the velocity, and the thickness parameter play a stabilizing influence. A dual role is readied for these parameters in the absence of the field frequency or in the anti-symmetric deformation. The field frequency still plays a destabilizing role in both cases.

Journal Article↗

Prediction of melting profiles and local helix stability for sequenced DNA.

The utility and limits of the current theory of helix-coil transition of DNA were intensively studied. Comparison of calculated and observed melting profiles affords solid criteria of a theoretical model and parameter values. Our model differs from others in that heterogeneity in stacking interactions is taken into consideration (Section II). The parameter values were estimated by fitting calculated to observed profiles for several known-sequenced DNA fragments (Section III). Calculated profiles agree quite well with observed, not only for DNAs used for the fitting but also for those not used. Such good agreement was never obtained with traditional two-term (A X T and G X C) stability assignment. It was shown that the all-or-none approximation for local melting transition (Azbel's model) provides informative but somewhat erroneous estimates of local stability. The stabilities of 10 kinds of stacking doublets estimated by the fitting accord well with known properties of DNA double helix (Subsection III-4); three-dimensional structure, calculated stacking energies, and binding specificity of some intercalative drugs are all consistent with the estimated order of stacking stabilities. Relationship between triplet stability and genetic code was discussed. The mechanisms of ionic-strength dependence of melting profiles were discussed in Section IV. Four different mechanisms were proposed and their relative contributions in various salt ranges were considered. It was suggested that at low ionic strengths melting processes deviate significantly from equilibrium, which fixes a limit to the applicability of the present theoretical mode. Locally unstable regions and frequently opening regions were located on several natural DNAs by calculating probabilities of individual base-pair doublets being in an unstacked state. With few exceptions, origins of DNA replication on various DNAs fall on frequently opening regions, indicating their functional importance. Positive correlations were also obtained between frequently opening regions and transcriptional promoters, terminators and gene boundaries (Section V).

Base Composition↗

Chevron defect at the intersection of grain boundaries with free surfaces in Au.

We have identified a new defect at the intersection between grain boundaries and surfaces in Au using atomic resolution transmission electron microscopy. At the junction line of 90 degrees <110> tilt grain boundaries of (110)-(001) orientation with the free surface, a small segment of the grain boundary, about 1 nm in length, dissociates into a triangular region with a chevronlike stacking disorder and a distorted hcp structure. The structure and stability of these defects are confirmed by atomistic simulations, and we point out the relationship with the one-dimensional incommensurate structure of the grain boundary.

Journal Article↗

Potential theory for shock reflection by a large-angle wedge.

When a plane shock hits a wedge head on, it experiences a reflection, and then a self-similar reflected shock moves outward as the original shock moves forward in time. Experimental, computational, and asymptotic analysis has shown that various patterns of reflected shocks may occur, including regular and Mach reflection. However, most fundamental issues for shock reflection phenomena have not been understood, such as the transition among the different patterns of shock reflection; therefore, it is essential to establish a global existence and stability theory for shock reflection. On the other hand, there has been no rigorous mathematical result on the global existence and stability of solutions to shock reflection, especially for potential flow, which has widely been used in aerodynamics. The theoretical problems involve several challenging difficulties in the analysis of nonlinear partial differential equations including elliptic-hyperbolic mixed type, free-boundary problems, and corner singularity, especially when an elliptic degenerate curve meets a free boundary. Here we develop a potential theory to overcome these difficulties and to establish the global existence and stability of solutions to shock reflection by a large-angle wedge for potential flow. The techniques and ideas developed will be useful to other nonlinear problems involving similar difficulties.

Journal Article↗

Perception of voice-onset-time continua: a signal detection analysis.

An absolute identification task and various discrimination tasks were performed on synthetic syllables initiated by alveolar stops varying in voice-onset-time (VOT). Signal detection analyses of the data yielded three main findings. First, discrimination d's exceeded those for absolute identification. Greater instability of judgment in the latter than in the former task explained this difference. Second, stimuli within a phonetic category were discriminable, even in a delayed 2IAX paradigm with 4s between stimuli. Third, a category boundary effect appeared: identification and discrimination d's were largest around the voiced/voiceless boundary for alveolar stops. The relationship between discrimination and identification d's varies with response constraints, the number of just noticeable differences in the stimulus array, and stability of judgments in the various tasks. Nearly equal performance in discrimination and identification tasks is not a sufficient condition for a category boundary effect to occur. Several arguments are advanced against a dual-coding model. A continuous model which invokes only a single decision process may account more gracefully for the relationship between identification and discrimination of both consonants and vowels.

Humans↗

Stabilization of stationary excitation pulses in an open flow without long-range inhibition.

We study numerically and experimentally the stabilization of stationary excitation pulses in an open flow system. Since all the species have equal flow and diffusion coefficients, stabilization of stationary pulses by long-range inhibition is excluded. Upstream propagating pulses slow down as they approach the inflow boundary, where a constant forcing establishes a downstream extending subexcitable boundary layer. When the flow velocity is low, successive pulses vanish as they reach the subexcitable region. When the flow velocity is increased, the incoming pulses pile up near the inflow one after the other to form a stationary and space-periodic structure. This occurs in such a manner that the system remembers and stores the number of incoming pulses. We show that flow-induced stabilization of stationary pulses involves a mechanism by which the upstream subexcitable region and the flow cause the arrest of the pulse front and the pulse back, respectively. We discuss how the flow-stabilized structures compare to, and are different from those stabilized by a long-ranged, diffusive inhibition and from those observed in boundary-forced open flows of media showing relaxation-type oscillations.

Journal Article↗

Molecular dynamics simulation of the stability of a 22-residue alpha-helix in water and 30% trifluoroethanol.

A molecular dynamics (MD) simulation was performed on the alpha-helix H8-HC5, the C-terminal part of myoglobin (residue 132-153), under periodic boundary conditions in two different solutions, water and water with 30% (v/v) 2,2,2-trifluoroethanol (TFE), at 300 K to investigate the stability of the helix. In both simulations, the initial configuration was a canonical right-handed alpha-helix. In the course of the MD trajectory in water (200 ps), the helix clearly destabilized and began to unfold after 100 ps. In the TFE solution, two stable parts of helical regions were observed after 70 ps of a 200-ps MD simulation, supporting the notion that TFE acts as a structure-forming solvent.

Amino Acid Sequence↗

Instability of creeping flow past a deformable wall: the role of depth-dependent modulus.

Linear stability analysis is carried out to examine the effect of a depth-dependent modulus on the stability of creeping flow of a Newtonian fluid past an incompressible and impermeable linear elastic solid. Two different systems are considered: (i) Couette flow past a solid with a continuously varying modulus, and (ii) Couette flow past two adjacent solids with different thicknesses and moduli. For the first system, we find that between two configurations having the same average modulus, the more stable configuration is the one that has the higher modulus at the interface. In the case of two different configurations having the same interfacial modulus and the same average modulus, the more stable configuration is the one that has the higher modulus right below the interface. For the second system, we find that stability depends in a non-monotonic way on the modulus ratio (top modulus to bottom modulus) of the two solids. If the thickness of the top solid is less than a critical value, then increasing the modulus ratio initially causes the system to be less stable. Since this critical thickness decreases as the modulus ratio increases, increasing the modulus ratio beyond a certain point causes the system to be more stable. An analysis of the solid-solid interfacial boundary conditions suggests that the relationship between the stiffness of the top solid and the stability of the system is due to a jump in the base-state displacement gradient at the interface which creates a net perturbation displacement.

Journal Article↗