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PubMed2006

Analysis of kinetic isotope effects for nonadiabatic reactions.

Factors influencing the rates of quantum mechanical particle transfer reactions in many-body systems are discussed. The investigations are carried out on a simple model for a proton transfer reaction that captures generic features seen in more realistic models of condensed phase systems. The model involves a bistable quantum oscillator coupled to a one-dimensional double-well reaction coordinate, which is in turn coupled to a bath of harmonic oscillators. Reactive-flux correlation functions that involve quantum-classical Liouville dynamics for chemical species operators and quantum equilibrium sampling are used to estimate the reaction rates. Approximate analytical expressions for the quantum equilibrium structure are derived. Reaction rates are shown to be influenced significantly by both the quantum equilibrium structure and nonadiabatic dynamics. Nonadiabatic dynamical effects are found to play the major role in determining the magnitude of the kinetic isotope effect for the model transfer reaction.

Journal Article↗
PubMed1981

High fundamental spatial frequencies and edges have different perceptual consequences in the 'group/end-to-end' movement phenomenon.

A subject viewing two alternating frames, each containing, say, three vertical stripes in a horizontal row, displaced laterally by one cycle in one frame with respect to the others, perceives either the three stripes moving left-right-left in unison (group movement) or one stripe moving from one end of the display to the other and the two overlapping stripes stationary (end-to-end movement). At suitable temporal parameters of presentation (frame duration, interstimulus interval) the perception of the display is bistable. Experiments have shown that the relative strengths of these alternative movement sensations depend upon the fundamental spatial frequency of the display and upon stimulus waveform. Square-wave stimuli, which have energy at high spatial frequencies, had effects opposite to those produced by increases in fundamental spatial frequency. Amblyopes differed from normal viewers only in the perception of the square-wave stimuli.

Amblyopia↗
PubMed1982

The square-wave illusion and phase anisotropy of the human visual system.

A triangular-wave grating is perceived to fluctuate over time: at one moment it may appear veridical (ie triangular), at another it may more closely resemble a square-wave grating with rounded edges. In addition, the square-wave illusion itself is bistable, in that it sometimes appears to shift in phase by 180 deg. Experiments in which the phase and amplitude of the first three frequency components of the triangular-wave grating were independently varied showed that the square-wave illusion results from the relative phase of the frequency components. Adaptation to two frequency components in square-wave (sine) phase was found to reduce the illusion strength, and adaptation to triangular-wave (cosine) phase was found to increase the illusion strength. In addition, the square-wave adaptation effect spreads to nonadapted retinal areas. It is concluded that the square-wave illusion reflects a phase anisotropy in the human visual system that favors square-wave phase over other phase relations.

Eye Movements↗
PubMed1983

Instability in triangular-wave gratings: a role for perceptual inferences?

Recently it has been reported that a grating with a triangular-wave luminance profile may fluctuate between being perceived veridically , and as a percept which more closely resembles a square wave, and is itself bistable. Several additional percepts which may be experienced are reported. It is also noted that the relative dominance of two of these percepts can be altered by either physically present or inferred cues as to the probable direction of illumination. It is suggested that these observations implicate higher-level processes in this new form of perceptual instability.

Discrimination Learning↗
PubMed1984

Low-level and high-level processes in the perceptual organization of three-dimensional apparent motion.

An experiment is described in which a bistable motion display is shown in four combinations of monoptic and dichoptic viewing. When two triangles are replaced by one of them, one of two competing phenomena can be seen: local disappearance of the triangle that has not been replaced; a 3-D rotation of a rigid triangle from one location to another. The dependence of the first sensation on the duration of the interstimulus interval and on monocular availability of the local-identity information confirms previous evidence about the existence of two processes which mediate apparent motion. The localization of the high-level process, however, is questioned on the basis of a comparison of data obtained when motion information was monoptic or only dichoptic. As monoptic motion information seems more effective, the 'figural' higher process cannot be wholly located at the binocular level.

Functional Laterality↗
PubMed1990

Amodal representation of occluded surfaces: role of invisible stimuli in apparent motion correspondence.

A series of demonstrations were created where the perceived depth of targets was controlled by stereoscopic disparity. A closer object (a cloud) was made to jump back and forth horizontally, partially occluding a farther object (a full moon). The more distant moon appeared stationary even though the unoccluded portion of it, a crescent, changed position. Reversal of the relative depth of the moon and cloud gave a totally different percept: the crescent appeared to flip back and forth in the front depth plane. Thus, the otherwise-robust apparent motion of the moon crescents was completely abolished in the cloud-closer case alone. This motion-blocking effect is attributed to the 'amodal presence' of the occluded surface continuing behind the occluding surface. To measure the effect of this occluded 'invisible' surface quantitatively, a bistable apparent motion display was used (Ramachandran and Anstis 1983a): two small rectangular-shaped targets changed their positions back and forth between two frames, and the disparity of a large centrally positioned rectangle was varied. When the perceived depths supported the possibility of amodal completion behind the large rectangle, increased vertical motion of the targets was found, suggesting that the amodal presence of the targets behind the occluder had effectively changed the center position of the moving targets for purposes of motion correspondence. Amodal contours are literally 'invisible', yet it is hypothesized that they have a neural representation at sufficiently early stages of visual processing to alter the correspondence solving process for apparent motion.

Attention↗
PubMed1990

Ambiguity in 3-D patterns induced by lighting assumptions.

A bistable pattern is shown with white and black bars with horizontal and vertical orientations which produce an impression of thin slabs stacked up in depth either toward or away from the observer. It is postulated that the ambiguity is induced by the observer's assumption of the direction of the light source.

Attention↗
PubMed1998

Attentional modulation in perception of visual motion events.

Identical visual targets moving across each other with equal and constant speed can be perceived either to bounce off or to stream through each other. This bistable motion perception has been studied mostly in the context of motion integration. Since the perception of most ambiguous motion is affected by attention, there is the possibility of attentional modulation occurring in this case as well. We investigated whether distraction of attention from the moving targets would alter the relative frequency of each percept. During the observation of the streaming/bouncing motion event in the peripheral visual field, visual attention was disrupted by an abrupt presentation of a visual distractor at various timings and locations (experiment 1; exogenous distraction of attention) or by the demand of an additional discrimination task (experiments 2 and 3; endogenous distraction of attention). Both types of distractions of attention increased the frequency of the bouncing percept and decreased that of the streaming percept. These results suggest that attention may facilitate the perception of object motion as continuing in the same direction as in the past.

Attention↗
PubMed1999

Effects of similarity on apparent motion and perceptual grouping.

Effects of similarity in colour, luminance, size, and shape on apparent motion and perceptual grouping were examined in part 1 in two parallel experiments on the same seven subjects. In both experiments, the effect of similarity was compared with that of proximity in competitive, bistable stimulus situations. A combination of a larger horizontal separation between the homogeneous stimulus elements and a smaller constant vertical separation between heterogeneous stimulus elements produced two kinds of apparent motion (or perceptual grouping) with equal probabilities. Such matched separations between homogeneous stimulus elements were obtained by the double staircase method in various stimulus conditions. In both experiments on apparent motion and perceptual grouping matched separation was found to increase as the difference between the heterogeneous stimulus elements increased. High correlations (0.71 to 0.94) of matched separations were found between apparent motion and perceptual grouping in four stimulus series: colour, luminance, size, and shape. Six of the seven subjects were also tested in part 2. Here, the effects of differences were found to work additively across different perceptual attributes in both phenomena, when multiple differences were combined in heterogeneous elements. The experimental results are discussed from the point of view that apparent motion is an example of perceptual constancy.

Humans↗
PubMed2001

Perceptual continuation and depth in visual phantoms can be explained by perceptual transparency.

We try to explain perceptual continuation and depth in the visual-phantom illusion in terms of perceptual transparency. Perceptual continuation of inducing gratings across the occluder in stationary phantoms could be explained with unique transparency, a notion proposed by Anderson (1997 Perception 26 419-453). This view is consistent with a number of previous reports including that of McCourt (1994 Vision Research 34 1609-1617) who criticized the stationary phantom illusion from the viewpoint of his counterphase lightness induction or grating induction, which might involve invalid transparency. Here we confirm that the photopic phantom illusion (Kitaoka et al, 1999 Perception 28 825-834) really gives in-phase lightness induction and involves bistable transparency. It is thus suggested that perceptual continuation and depth in the visual-phantom illusion depend on perceptual transparency.

Analysis of Variance↗
PubMed2002

Experiments on the role of painted cues in Hughes's reverspectives.

The English artist Patrick Hughes has created an extraordinary class of painted artpieces, most commonly referred to as 'reverspectives'. They consist of truncated pyramids and prisms with their smaller faces closer to the viewer, in such a way as to allow a realistic scene to be painted on them. The works of art contain rich perspective and other painted cues that conspire to elicit an illusory depth percept that is the reverse of the physical depth arrangement. This reverse depth is obtained under a wide range of viewing conditions, and competes with the veridical depth percept in a classical bistable paradigm that was found to exhibit a high degree of hysteresis. Under the illusory depth percept, reverspectives appear to move vividly as the viewer moves in front of them. This paper reports two experiments that were designed to assess the effectiveness of the painted cues in eliciting the illusory depth percept by using three different measures for the strength of the illusion. As expected, the illusion was favored by monocular viewing and large viewing distances. The results from these two experiments are in close agreement with each other, and they indicate that the painted cues are powerful in influencing the ultimate percept.

Cues↗
PubMed2004

Experiments with a hollow mask and a reverspective: top-down influences in the inversion effect for 3-D stimuli.

Earlier psychophysical and physiological studies, obtained mostly with two-dimensional (2-D) stimuli, provided evidence for the hypothesis that the processing of faces differs from that of scenes. We report on our experiments, employing realistic three-dimensional (3-D) stimuli of a hollow mask and a scene, that offer further evidence for this hypothesis. The stimuli used for both faces and scenes were bistable, namely they could elicit either the veridical or an illusory volumetric percept. Our results indicate that the illusion is weakened when the stimuli are inverted, suggesting the involvement of top down processes. This inversion effect is statistically significant for the facial stimulus, but the trend did not reach statistical significance for the scene stimulus. These results support the hypothesis that configural processing is stronger for the 3-D perception of faces than it is for scenes, and extend the conclusions of earlier studies on 2-D stimuli.

Adolescent↗
PubMed2005

Perceptual alternation induced by visual transients.

When our visual system is confronted with ambiguous stimuli, the perceptual interpretation spontaneously alternates between the competing incompatible interpretations. The timing of such perceptual alternations is highly stochastic and the underlying neural mechanisms are poorly understood. We show that perceptual alternations can be triggered by a transient stimulus presented nearby. The induction was tested for four types of bistable stimuli: structure-from-motion, binocular rivalry, Necker cube, and ambiguous apparent motion. While underlying mechanisms may vary among them, a transient flash induced time-locked perceptual alternations in all cases. The effect showed a dependence on the adaptation to the dominant percept prior to the presentation of a flash. These perceptual alternations show many similarities to perceptual disappearances induced by transient stimuli (Kanai and Kamitani, 2003 Journal of Cognitive Neuroscience 15 664-672; Moradi and Shimojo, 2004 Vision Research 44 449-460). Mechanisms linking these two transient-induced phenomena are discussed.

Adaptation, Psychological↗
PubMed2004

Design of genetic networks with specified functions by evolution in silico.

Recent studies have provided insights into the modular structure of genetic regulatory networks and emphasized the interest of quantitative functional descriptions. Here, to provide a priori knowledge of the structure of functional modules, we describe an evolutionary procedure in silico that creates small gene networks performing basic tasks. We used it to create networks functioning as bistable switches or oscillators. The obtained circuits provide a variety of functional designs, demonstrate the crucial role of posttranscriptional interactions, and highlight design principles also found in known biological networks. The procedure should prove helpful as a way to understand and create small functional modules with diverse functions as well as to analyze large networks.

Algorithms↗
PubMed2004

An effective kinetic representation of fluctuation-driven neuronal networks with application to simple and complex cells in visual cortex.

A coarse-grained representation of neuronal network dynamics is developed in terms of kinetic equations, which are derived by a moment closure, directly from the original large-scale integrate-and-fire (I&F) network. This powerful kinetic theory captures the full dynamic range of neuronal networks, from the mean-driven limit (a limit such as the number of neurons N --> infinity, in which the fluctuations vanish) to the fluctuation-dominated limit (such as in small N networks). Comparison with full numerical simulations of the original I&F network establishes that the reduced dynamics is very accurate and numerically efficient over all dynamic ranges. Both analytical insights and scale-up of numerical representation can be achieved by this kinetic approach. Here, the theory is illustrated by a study of the dynamical properties of networks of various architectures, including excitatory and inhibitory neurons of both simple and complex type, which exhibit rich dynamic phenomena, such as, transitions to bistability and hysteresis, even in the presence of large fluctuations. The implication for possible connections between the structure of the bifurcations and the behavior of complex cells is discussed. Finally, I&F networks and kinetic theory are used to discuss orientation selectivity of complex cells for "ring-model" architectures that characterize changes in the response of neurons located from near "orientation pinwheel centers" to far from them.

Computer Simulation↗
PubMed2005

Attention-driven discrete sampling of motion perception.

In movies or on TV, a wheel can seem to rotate backwards, due to the temporal subsampling inherent in the recording process (the wagon wheel illusion). Surprisingly, this effect has also been reported under continuous light, suggesting that our visual system, too, might sample motion in discrete "snapshots." Recently, these results and their interpretation have been challenged. Here, we investigate the continuous wagon wheel illusion as a form of bistable percept. We observe a strong temporal frequency dependence: the illusion is maximal at alternation rates around 10 Hz but shows no spatial frequency dependence. We introduce an objective method, based on unbalanced counterphase gratings, for measuring this phenomenon and demonstrate that the effect critically depends on attention: the continuous wagon wheel illusion was almost abolished in the absence of focused attention. A motion-energy model, coupled with attention-dependent temporal subsampling of the perceptual stream at rates between 10 and 20 Hz, can quantitatively account for the observed data.

Attention↗
PubMed2005

Hysteresis in a synthetic mammalian gene network.

Bistable and hysteretic switches, enabling cells to adopt multiple internal expression states in response to a single external input signal, have a pivotal impact on biological systems, ranging from cell-fate decisions to cell-cycle control. We have designed a synthetic hysteretic mammalian transcription network. A positive feedback loop, consisting of a transgene and transactivator (TA) cotranscribed by TA's cognate promoter, is repressed by constitutive expression of a macrolide-dependent transcriptional silencer, whose activity is modulated by the macrolide antibiotic erythromycin. The antibiotic concentration, at which a quasi-discontinuous switch of transgene expression occurs, depends on the history of the synthetic transcription circuitry. If the network components are imbalanced, a graded rather than a quasi-discontinuous signal integration takes place. These findings are consistent with a mathematical model. Synthetic gene networks, which are able to emulate natural gene expression behavior, may foster progress in future gene therapy and tissue engineering initiatives.

Alkaline Phosphatase↗
PubMed2005

A coherent framework for multiresolution analysis of biological networks with "memory": Ras pathway, cell cycle, and immune system.

Various biological processes exhibit characteristics that vary dramatically in response to different input conditions or changes in the history of the process itself. One of the examples studied here, the Ras-PKC-mitogen-activated protein kinase (MAPK) bistable pathway, follows two distinct dynamics (modes) depending on duration and strength of EGF stimulus. Similar examples are found in the behavior of the cell cycle and the immune system. A classification methodology, based on time-frequency analysis, was developed and tested on these systems to understand global behavior of biological processes. Contrary to most traditionally used statistical and spectral methods, our approach captures complex functional relations between parts of the systems in a simple way. The resulting algorithms are capable of analyzing and classifying sets of time-series data obtained from in vivo or in vitro experiments, or in silico simulation of biological processes. The method was found to be considerably stable under stochastic noise perturbation and, therefore, suitable for the analysis of real experimental data.

Algorithms↗