Theory of Nonequilibrium Spin Transport and Spin Transfer Torque in Superconducting-Ferromagnetic Nanostructures

Spin transport currents and the spin-transfer torques in voltage-biased superconducting-ferromagnetic nanopillars (SFNFS point contacts) are computed. We develop and implement an algorithm based on the Ricatti formulation of the quasiclassical theory of superconductivity to solve the time-dependent boundary conditions for the nonequilibrium Green's functions for spin transport through the ferromagnetic interfaces. A signature of the nonequilibrium torque is a component perpendicular to the plane spanned by the two ferromagnetic moments. The perpendicular component is absent in normal-metal-ferromagnetic nanopillars (NFNFN) contacts, but is shown to have the same order of magnitude as the in-plane torque for non-equilibrium SFNFS contacts. The out-of-plane torque is due to the rotation of quasiparticle spin by the exchange fields of the ferromagnetic layers. In the ballistic limit the equilibrium torque is related to the spectrum of spin-polarized Andreev bound states, while the {\sl ac} component, for small bias voltages, is determined by the nearly adiabatic dynamics of the Andreev bound states. The nonlinear voltage dependence of the non-equilibrium torque, including the subharmonic gap structure and the high-voltage asymptotics, is attributed to the interplay between multiple Andreev reflections, spin filtering and spin mixing. These properties of spin angular momentum transport may be exploited to control the state of nanomagnets.Comment: 15 pages, 14 figure

Phosphoglycerate kinase acts as a futile cycle at high temperature

In (hyper)thermophilic organisms metabolic processes have to be adapted to function optimally at high temperature. We compared the gluconeogenic conversion of 3-phosphoglycerate via 1,3-bisphosphoglycerate to glyceraldehyde-3-phosphate at 30 C and at 70 C. At 30 C it was possible to produce 1,3-bisphosphoglycerate from 3-phosphoglycerate with phosphoglycerate kinase, but at 70 C, 1,3-bisphosphoglycerate was dephosphorylated rapidly to 3-phosphoglycerate, effectively turning the phosphoglycerate kinase into a futile cycle. When phosphoglycerate kinase was incubated together with glyceraldehyde 3-phosphate dehydrogenase it was possible to convert 3-phosphoglycerate to glyceraldehyde 3- phosphate, both at 30 C and at 70 C, however, at 70 C only low concentrations of product were observed due to thermal instability of glyceraldehyde 3-phosphate. Thus, thermolabile intermediates challenge central metabolic reactions and require special adaptation strategies for life at high temperature

The JWS online simulation database

Summary: JWS Online is a web-based platform for construction, simulation and exchange of models in standard formats. We have extended the platform with a database for curated simulation experiments that can be accessed directly via a URL, allowing one-click reproduction of published results. Users can modify the simulation experiments and export them in standard formats. The Simulation database thus lowers the bar on exploring computational models, helps users create valid simulation descriptions and improves the reproducibility of published simulation experiments. Availability and Implementation: The Simulation Database is available on line at https://jjj.bio.vu. nl/models/experiments/

The Systems Biology Graphical Notation

Circuit diagrams and Unified Modeling Language diagrams are just two examples of standard visual languages that help accelerate work by promoting regularity, removing ambiguity and enabling software tool support for communication of complex information. Ironically, despite having one of the highest ratios of graphical to textual information, biology still lacks standard graphical notations. The recent deluge of biological knowledge makes addressing this deficit a pressing concern. Toward this goal, we present the Systems Biology Graphical Notation (SBGN), a visual language developed by a community of biochemists, modelers and computer scientists. SBGN consists of three complementary languages: process diagram, entity relationship diagram and activity flow diagram. Together they enable scientists to represent networks of biochemical interactions in a standard, unambiguous way. We believe that SBGN will foster efficient and accurate representation, visualization, storage, exchange and reuse of information on all kinds of biological knowledge, from gene regulation, to metabolism, to cellular signaling. © 2009 Nature America, Inc

Java Web Simulation (JWS); a web based database of kinetic models.

NatuurwetenskappeBiochemiePlease help us populate SUNScholar with the post print version of this article. It can be e-mailed to: [email protected]