Inferring Microscopic Kinetic Rates from Stationary State Distributions.

We present a principled approach for estimating the matrix of microscopic transition probabilities among states of a Markov process, given only its stationary state population distribution and a single average global kinetic observable. We adapt Maximum Caliber, a variational principle in which the path entropy is maximized over the distribution of all possible trajectories, subject to basic kinetic constraints and some average dynamical observables. We illustrate the method by computing the solvation dynamics of water molecules from molecular dynamics trajectories

Fundamental Properties of Intensity, Form, and Motion Perception in the Visual Nervous Systems of Calliphora phaenicia and Musca domestica

Several classes of interneurons in the optic lobes and brain of the insects, Musca domestica and Calliphora phaenicia, have been studied in detail. Visual stimuli have been categorized on the basis of the properties of intensity, form, and motion. Response characteristics of the classes of neural units are described with respect to these three classes of visual stimuli. While those units that detect motion in select directions have a tonic response, form detection units have a phasic response only. Through correlation of the responses of these classes with visual stimuli, it is shown that these units integrate the responses of other units which have very small visual fields. The small-field units are presumed to integrate the output of a small group of adjacent retinula cells and to respond differentially to intensity, form, and motion. It is shown that the response of both form and motion detection units is independent of the direction of pattern intensity gradation. As a consequence of this independence, it is further shown that failure to detect motion properly must start at a spatial wavelength four times the effective sampling station spacing rather than twice as has been predicted previously

On induced birefringence in viscoelastic materials

Describing induced birefringence in viscoelastic materials based on constitutive assumptions for stress and dielectric propertie

Airflow Model Testing to Determine the Distribution of Hot Gas Flow and O/F Ratio Across the Space Shuttle Main Engine Main Injector Assembly

Engine 0209, the certification engine for the new Phase 2+ Hot Gas Manifold (HGM), showed severe deterioration of the Main Combustion Chamber (MCC) liner during hot fire tests. One theory on the cause of the damage held that uneven local distribution of the fuel rich hot gas flow through the main injector assembly was producing regions of high oxidizer/fuel (O/F) ratio near the wall of the MCC liner. Airflow testing was proposed to measure the local hot gas flow rates through individual injector elements. The airflow tests were conducted using full scale, geometrically correct models of both the current Phase 2 and the new Phase 2+ HGMs. Different main injector flow shield configurations were tested for each HGM to ascertain their effect on the pressure levels and distribution of hot gas flow. Instrumentation located on the primary faceplate of the main injector measured hot gas flow through selected injector elements. These data were combined with information from the current space shuttle main engine (SSME) power balances to produce maps of pressure, hot gas flow rate, and O/F ratio near the main injector primary plate. The O/F distributions were compared for the different injector and HGM configurations

Viscosity Dependence of the Folding Rates of Proteins

The viscosity dependence of the folding rates for four sequences (the native state of three sequences is a beta-sheet, while the fourth forms an alpha-helix) is calculated for off-lattice models of proteins. Assuming that the dynamics is given by the Langevin equation we show that the folding rates increase linearly at low viscosities \eta, decrease as 1/\eta at large \eta and have a maximum at intermediate values. The Kramers theory of barrier crossing provides a quantitative fit of the numerical results. By mapping the simulation results to real proteins we estimate that for optimized sequences the time scale for forming a four turn \alpha-helix topology is about 500 nanoseconds, whereas the time scale for forming a beta-sheet topology is about 10 microseconds.Comment: 14 pages, Latex, 3 figures. One figure is also available at http://www.glue.umd.edu/~klimov/seq_I_H.html, to be published in Physical Review Letter