Representation of the transfer functions of given structures by their eigen-vibrations, taking into consideration any arbitrary excitation

Eigen-vibration representation of transfer functions for structures by considering arbitrary excitation

A new metric for probability distributions

We introduce a metric for probability distributions, which is bounded, information-theoretically motivated, and has a natural Bayesian interpretation. The square root of the well-known chi(2) distance is an asymptotic approximation to it. Moreover, it is a close relative of the capacitory discrimination and Jensen-Shannon divergence.Publisher PDFPeer reviewe

Candidate amino acids involved in H+ gating of acid-sensing ion channel 1a

Acid-sensing ion channels are ligand-gated cation channels, gated by extracellular H+. H+ is the simplest ligand possible, and whereas for larger ligands that gate ion channels complex binding sites in the three-dimensional structure of the proteins have to be assumed, H+ could in principle gate a channel by titration of a single amino acid. Experimental evidence suggests a more complex situation, however. For example, it has been shown that extracellular Ca2+ ions compete with H+; probably Ca2+ ions bound to the extracellular loop of ASICs stabilize the closed state of the channel and have to be displaced before the channel can open. In such a scheme, amino acids contributing to Ca2+ binding would also be candidates contributing to H+ gating. In this study we systematically screened more than 40 conserved, charged amino acids in the extracellular region of ASIC1a for a possible contribution to H+ gating. We identified four amino acids where substitution strongly affects H+ gating: Glu63, His72/His73, and Asp78. These amino acids are highly conserved among H+-sensitive ASICs and are candidates for the “H+ sensor” of ASICs

Quantum to classical crossover in the 2D easy-plane XXZ model

Ground-state and thermodynamical properties of the spin-1/2 two-dimensional easy-plane XXZ model are investigated by both a Green's-function approach and by Lanczos diagonalizations on lattices with up to 36 sites. We calculate the spatial and temperature dependences of various spin correlation functions, as well as the wave-vector dependence of the spin susceptibility for all anisotropy parameters $\Delta$. In the easy--plane ferromagnetic region $(-1< \Delta < 0)$, the longitudinal correlators of spins at distance $r$ change sign at a finite temperature $T_0(\Delta, {\bf r})$. This transition, observed in the 2D case for the first time, can be interpreted as a quantum to classical crossover.Comment: 4 pages, 6 figures, Contribution to the Ising Centennial Colloquium, ICM2000, Belo Horizonte, Brazil, August 200

OpenSPIM - an open access platform for light sheet microscopy

Light sheet microscopy promises to revolutionize developmental biology by enabling live in toto imaging of entire embryos with minimal phototoxicity. We present detailed instructions for building a compact and customizable Selective Plane Illumination Microscopy (SPIM) system. The integrated OpenSPIM hardware and software platform is shared with the scientific community through a public website, thereby making light sheet microscopy accessible for widespread use and optimization to various applications.Comment: 7 pages, 3 figures, 6 supplementary videos, submitted to Nature Methods, associated public website http://openspim.or

Theory of short-range magnetic order for the t-J model

We present a self-consistent theory of magnetic short-range order based on a spin-rotation-invariant slave-boson representation of the 2D t-J model. In the functional-integral scheme, at the nearest-neighbour pair-approximation level, the bosonized t-J Lagrangian is transformed to a classical Heisenberg model with an effective (doping-dependent) exchange interaction which takes into account the interrelation of ``itinerant'' and ``localized'' magnetic behaviour. Evaluating the theory in the saddle-point approximation, we find a suppression of antiferromagnetic and incommensurate spiral long-range-ordered phases in the favour of a paramagnetic phase with pronounced antiferromagnetic short-range correlations.Comment: 2 pages, 1 Postscript figure, LTpaper.sty, Proc. XXI Int. Conf. on Low Temp. Phys. Prague 9

On space vehicle attitude stabilization by passive control moment gyros

Equations of motion for passive control moment gyro stabilization of space vehicle attitud

ImageJ2: ImageJ for the next generation of scientific image data

ImageJ is an image analysis program extensively used in the biological sciences and beyond. Due to its ease of use, recordable macro language, and extensible plug-in architecture, ImageJ enjoys contributions from non-programmers, amateur programmers, and professional developers alike. Enabling such a diversity of contributors has resulted in a large community that spans the biological and physical sciences. However, a rapidly growing user base, diverging plugin suites, and technical limitations have revealed a clear need for a concerted software engineering effort to support emerging imaging paradigms, to ensure the software's ability to handle the requirements of modern science. Due to these new and emerging challenges in scientific imaging, ImageJ is at a critical development crossroads. We present ImageJ2, a total redesign of ImageJ offering a host of new functionality. It separates concerns, fully decoupling the data model from the user interface. It emphasizes integration with external applications to maximize interoperability. Its robust new plugin framework allows everything from image formats, to scripting languages, to visualization to be extended by the community. The redesigned data model supports arbitrarily large, N-dimensional datasets, which are increasingly common in modern image acquisition. Despite the scope of these changes, backwards compatibility is maintained such that this new functionality can be seamlessly integrated with the classic ImageJ interface, allowing users and developers to migrate to these new methods at their own pace. ImageJ2 provides a framework engineered for flexibility, intended to support these requirements as well as accommodate future needs

Green's-function theory of the Heisenberg ferromagnet in a magnetic field

We present a second-order Green's-function theory of the one- and two-dimensional S=1/2 ferromagnet in a magnetic field based on a decoupling of three-spin operator products, where vertex parameters are introduced and determined by exact relations. The transverse and longitudinal spin correlation functions and thermodynamic properties (magnetization, isothermal magnetic susceptibility, specific heat) are calculated self-consistently at arbitrary temperatures and fields. In addition, exact diagonalizations on finite lattices and, in the one-dimensional case, exact calculations by the Bethe-ansatz method for the quantum transfer matrix are performed. A good agreement of the Green's-function theory with the exact data, with recent quantum Monte Carlo results, and with the spin polarization of a $\nu=1$ quantum Hall ferromagnet is obtained. The field dependences of the position and height of the maximum in the temperature dependence of the susceptibility are found to fit well to power laws, which are critically analyzed in relation to the recently discussed behavior in Landau's theory. As revealed by the spin correlation functions and the specific heat at low fields, our theory provides an improved description of magnetic short-range order as compared with the random phase approximation. In one dimension and at very low fields, two maxima in the temperature dependence of the specific heat are found. The Bethe-ansatz data for the field dependences of the position and height of the low-temperature maximum are described by power laws. At higher fields in one and two dimensions, the temperature of the specific heat maximum linearly increases with the field.Comment: 9 pages, 9 figure