Good Learning and Implicit Model Enumeration

MathSBML is an open-source, freely-downloadable Mathematica package that facilitates working with Systems Biology Markup Language (SBML) models. SBML is a toolneutral,computer-readable format for representing models of biochemical reaction networks, applicable to metabolic networks, cell-signaling pathways, genomic regulatory networks, and other modeling problems in systems biology that is widely supported by the systems biology community. SBML is based on XML, a standard medium for representing and transporting data that is widely supported on the internet as well as in computational biology and bioinformatics. Because SBML is tool-independent, it enables model transportability, reuse, publication and survival. In addition to MathSBML, a number of other tools that support SBML model examination and manipulation are provided on the sbml.org website, including libSBML, a C/C++ library for reading SBML models; an SBML Toolbox for MatLab; file conversion programs; an SBML model validator and visualizer; and SBML specifications and schemas. MathSBML enables SBML file import to and export from Mathematica as well as providing an API for model manipulation and simulation

Responsiveness of the order fulfilment process

This paper discusses evidence from field studies undertaken to investigate the responsiveness of the order fulfilment process in a number of companies. The evidence is analysed in the context of the literature on responsiveness and related areas such as time-based competition. Similarities and differences are analysed across a number of industrial sectors with respect to order fulfilment processes and the interpretation and significance of responsiveness. Generic factors that influence different types of companies are identified. Four components of responsiveness - stimuli, awareness, capabilities and goals - emerge from an analysis of the literature. The field and case study evidence allows the development of more precise definitions and descriptions of each of these components. The study also allows a generic responsiveness framework to be developed that incorporates both strategic and operational viewpoints. The need for more field studies on responsiveness is noted. More work is advocated on the assessment and measurement of responsiveness and on developing appropriate responsiveness interventions, particularly with respect to the order fulfilment process

Renormalization Group and Decoupling in Curved Space: II. The Standard Model and Beyond

We continue the study of the renormalization group and decoupling of massive fields in curved space, started in the previous article and analyse the higher derivative sector of the vacuum metric-dependent action of the Standard Model. The QCD sector at low-energies is described in terms of the composite effective fields. For fermions and scalars the massless limit shows perfect correspondence with the conformal anomaly, but similar limit in a massive vector case requires an extra compensating scalar. In all three cases the decoupling goes smoothly and monotonic. A particularly interesting case is the renormalization group flow in the theory with broken supersymmetry, where the sign of one of the beta-functions changes on the way from the UV to IR.Comment: 27 pages, 8 figure

Universality of the critical conductance distribution in various dimensions

We study numerically the metal - insulator transition in the Anderson model on various lattices with dimension $2 < d \le 4$ (bifractals and Euclidian lattices). The critical exponent $\nu$ and the critical conductance distribution are calculated. We confirm that $\nu$ depends only on the {\it spectral} dimension. The other parameters - critical disorder, critical conductance distribution and conductance cummulants - depend also on lattice topology. Thus only qualitative comparison with theoretical formulae for dimension dependence of the cummulants is possible

Interaction-Induced Magnetization of the Two-Dimensional Electron Gas

We consider the contribution of electron-electron interactions to the orbital magnetization of a two-dimensional electron gas, focusing on the ballistic limit in the regime of negligible Landau-level spacing. This regime can be described by combining diagrammatic perturbation theory with semiclassical techniques. At sufficiently low temperatures, the interaction-induced magnetization overwhelms the Landau and Pauli contributions. Curiously, the interaction-induced magnetization is third-order in the (renormalized) Coulomb interaction. We give a simple interpretation of this effect in terms of classical paths using a renormalization argument: a polygon must have at least three sides in order to enclose area. To leading order in the renormalized interaction, the renormalization argument gives exactly the same result as the full treatment.Comment: 11 pages including 4 ps figures; uses revtex and epsf.st

Erratum: Evidence for a model of agonist-induced activation of 5-hydroxytryptamine 2A serotonin receptors that involves the disruption of a strong ionic interaction between helices 3 and 6 (Journal of Biological Chemistry (2002) 277 (11441-11449))

[No abstract available

Structural Phase Transition in AuZn Alloys

AuxZn1-x alloys undergo a shape memory martensitic transformation whose temperature and nature (continuous or discontinuous) is strongly composition dependent. Neutron diffraction experiments were performed on single crystals of x=50 and 52 to explore the structural changes occurring at the transition temperature. A transverse modulation with wavevector q0=(1/3,1/3,0) develops below the transition temperature, with no observable change in lattice parameter. However, the Bragg peak width shows a broadening suggesting an unresolved rhombohedral distortion similar to what has been observed in NiTi-Fe alloys

Evidence for a model of agonist-induced activation of 5-hydroxytryptamine 2A serotonin receptors that involves the disruption of a strong ionic interaction between helices 3 and 6

5-Hydroxytryptamine 2A (5-HT2A) receptors are essential for the actions of serotonin (5-hydroxytryptamine (5-HT)) on physiological processes as diverse as vascular smooth muscle contraction, platelet aggregation, perception, and emotion. In this study, we investigated the molecular mechanism(s) by which 5-HT activates 5-HT2A receptors using a combination of approaches including site-directed mutagenesis, molecular modeling, and pharmacological analysis using the sensitive, cell-based functional assay R-SAT. Alanine-scanning mutagenesis of residues close to the intracellular end of H6 of the 5-HT2A receptor implicated glutamate Glu-318(6.30) in receptor activation, as also predicted by a newly constructed molecular model of the 5-HT2A receptor, which was based on the x-ray structure of bovine rhodopsin. Close examination of the molecular model suggested that Glu-318(6.30) could form a strong ionic interaction with Arg-173(3.50) of the highly conserved "(D/E)RY motif" located at the interface between the third transmembrane segment and the second intracellular loop (i2). A direct prediction of this hypothesis, that disrupting this ionic interaction by an E318(6.30)R mutation would lead to a highly constitutively active receptor with enhanced affinity for agonist, was confirmed using R-SAT. Taken together, these results predict that the disruption of a strong ionic interaction between transmembrane helices 3 and 6 of 5-HT2A receptors is essential for agonist-induced receptor activation and, as recently predicted by ourselves (B. L. Roth and D. A. Shapiro (2001) Expert Opin. Ther. Targets 5, 685-695) and others, that this may represent a general mechanism of activation for many, but not all, G-protein-coupled receptors

One loop renormalization of the four-dimensional theory for quantum dilaton gravity.

We study the one loop renormalization in the most general metric-dilaton theory with the second derivative terms only. The general theory can be divided into two classes, models of one are equivalent to conformally coupled with gravity scalar field and also to general relativity with cosmological term. The models of second class have one extra degree of freedom which corresponds to dilaton. We calculate the one loop divergences for the models of second class and find that the arbitrary functions of dilaton in the starting action can be fine-tuned in such a manner that all the higher derivative counterterms disappear on shell. The only structures in both classical action and counterterms, which survive on shell, are the potential (cosmological) ones. They can be removed by renormalization of the dilaton field which acquire the nontrivial anomalous dimension, that leads to the effective running of the cosmological constant. For some of the renormalizable solutions of the theory the observable low energy value of the cosmological constant is small as compared with the Newtonian constant. We also discuss another application of our result.Comment: 21 pages, latex, no figures

Interaction of Low - Energy Induced Gravity with Quantized Matter and Phase Transition Induced by Curvature

At high energy scale the only quantum effect of any asymptotic free and asymptotically conformal invariant GUT is the trace anomaly of the energy-momentum tensor. Anomaly generates the new degree of freedom, that is propagating conformal factor. At lower energies conformal factor starts to interact with scalar field because of the violation of conformal invariance. We estimate the effect of such an interaction and find the running of the nonminimal coupling from conformal value $\frac{1}{6}$ to $0$. Then we discuss the possibility of the first order phase transition induced by curvature in a region close to the stable fixed point and calculate the induced values of Newtonian and cosmological constants.Comment: 11 pages, LaTex, KEK-TH-397-KEK Preprint 94-3