Johannes Kepler University of Linz

About: Johannes Kepler University of Linz is a education organization based out in Linz, Oberösterreich, Austria. It is known for research contribution in the topics: Computer science & Thin film. The organization has 6605 authors who have published 19243 publications receiving 385667 citations.

Tuning of Vertical and Lateral Correlations in Self-Organized PbSe/Pb 1-x Eu x Te Quantum Dot Superlattices

Abstract: The tuning of lateral and vertical correlations in self-organized PbSe/Pb 1-xEu xTe quantum dot superlattices by changes in the spacer thicknesses is demonstrated and shown to be due to finite size effects in the dot-dot interactions As a consequence, different dot arrangements such as vertically aligned dot columns or fcc stacking are obtained for a single material system without changes in growth conditions The different dot superstructures are shown to exhibit a different scaling behavior of the lateral versus vertical dot separation, as well as a different evolution of dot sizes and shapes

Self-optimizing AST interpreters

Abstract: An abstract syntax tree (AST) interpreter is a simple and natural way to implement a programming language. However, it is also considered the slowest approach because of the high overhead of virtual method dispatch. Language implementers therefore define bytecodes to speed up interpretation, at the cost of introducing inflexible and hard to maintain bytecode formats. We present a novel approach to implementing AST interpreters in which the AST is modified during interpretation to incorporate type feedback. This tree rewriting is a general and powerful mechanism to optimize many constructs common in dynamic programming languages. Our system is implemented in Java and uses the static typing and primitive data types of Java elegantly to avoid the cost of boxed representations of primitive values in dynamic programming languages.

Opening the Black Box: Strategies for Increased User Involvement in Existing Algorithm Implementations

Abstract: An increasing number of interactive visualization tools stress the integration with computational software like MATLAB and R to access a variety of proven algorithms. In many cases, however, the algorithms are used as black boxes that run to completion in isolation which contradicts the needs of interactive data exploration. This paper structures, formalizes, and discusses possibilities to enable user involvement in ongoing computations. Based on a structured characterization of needs regarding intermediate feedback and control, the main contribution is a formalization and comparison of strategies for achieving user involvement for algorithms with different characteristics. In the context of integration, we describe considerations for implementing these strategies either as part of the visualization tool or as part of the algorithm, and we identify requirements and guidelines for the design of algorithmic APIs. To assess the practical applicability, we provide a survey of frequently used algorithm implementations within R regarding the fulfillment of these guidelines. While echoing previous calls for analysis modules which support data exploration more directly, we conclude that a range of pragmatic options for enabling user involvement in ongoing computations exists on both the visualization and algorithm side and should be used.

Immobilizing the Moving Parts of Voltage-Gated Ion Channels

Abstract: Voltage-gated ion channels have at least two classes of moving parts, voltage sensors that respond to changes in the transmembrane potential and gates that create or deny permeant ions access to the conduction pathway. To explore the coupling between voltage sensors and gates, we have systematically immobilized each using a bifunctional photoactivatable cross-linker, benzophenone-4-carboxamidocysteine methanethiosulfonate, that can be tethered to cysteines introduced into the channel protein by mutagenesis. To validate the method, we first tested it on the inactivation gate of the sodium channel. The benzophenone-labeled inactivation gate of the sodium channel can be trapped selectively either in an open or closed state by ultraviolet irradiation at either a hyperpolarized or depolarized voltage, respectively. To verify that ultraviolet light can immobilize S4 segments, we examined its relative effects on ionic and gating currents in Shaker potassium channels, labeled at residue 359 at the extracellular end of the S4 segment. As predicted by the tetrameric stoichiometry of these potassium channels, ultraviolet irradiation reduces ionic current by approximately the fourth power of the gating current reduction, suggesting little cooperativity between the movements of individual S4 segments. Photocross-linking occurs preferably at hyperpolarized voltages after labeling residue 359, suggesting that depolarization moves the benzophenone adduct out of a restricted environment. Immobilization of the S4 segment of the second domain of sodium channels prevents channels from opening. By contrast, photocross-linking the S4 segment of the fourth domain of the sodium channel has effects on both activation and inactivation. Our results indicate that specific voltage sensors of the sodium channel play unique roles in gating, and suggest that movement of one voltage sensor, the S4 segment of domain 4, is at least a two-step process, each step coupled to a different gate.