Showing papers by "École Polytechnique Fédérale de Lausanne published in 2003"

Geant4—a simulation toolkit

Abstract: G eant 4 is a toolkit for simulating the passage of particles through matter. It includes a complete range of functionality including tracking, geometry, physics models and hits. The physics processes offered cover a comprehensive range, including electromagnetic, hadronic and optical processes, a large set of long-lived particles, materials and elements, over a wide energy range starting, in some cases, from 250 eV and extending in others to the TeV energy range. It has been designed and constructed to expose the physics models utilised, to handle complex geometries, and to enable its easy adaptation for optimal use in different sets of applications. The toolkit is the result of a worldwide collaboration of physicists and software engineers. It has been created exploiting software engineering and object-oriented technology and implemented in the C++ programming language. It has been used in applications in particle physics, nuclear physics, accelerator design, space engineering and medical physics.

Performance assessment of multiobjective optimizers: an analysis and review

Abstract: An important issue in multiobjective optimization is the quantitative comparison of the performance of different algorithms. In the case of multiobjective evolutionary algorithms, the outcome is usually an approximation of the Pareto-optimal set, which is denoted as an approximation set, and therefore the question arises of how to evaluate the quality of approximation sets. Most popular are methods that assign each approximation set a vector of real numbers that reflect different aspects of the quality. Sometimes, pairs of approximation sets are also considered. In this study, we provide a rigorous analysis of the limitations underlying this type of quality assessment. To this end, a mathematical framework is developed which allows one to classify and discuss existing techniques.

The many faces of publish/subscribe

Abstract: Well adapted to the loosely coupled nature of distributed interaction in large-scale applications, the publish/subscribe communication paradigm has recently received increasing attention. With systems based on the publish/subscribe interaction scheme, subscribers register their interest in an event, or a pattern of events, and are subsequently asynchronously notified of events generated by publishers. Many variants of the paradigm have recently been proposed, each variant being specifically adapted to some given application or network model. This paper factors out the common denominator underlying these variants: full decoupling of the communicating entities in time, space, and synchronization. We use these three decoupling dimensions to better identify commonalities and divergences with traditional interaction paradigms. The many variations on the theme of publish/subscribe are classified and synthesized. In particular, their respective benefits and shortcomings are discussed both in terms of interfaces and implementations.

Reducing the time complexity of the derandomized evolution strategy with covariance matrix adaptation (CMA-ES)

Abstract: This paper presents a novel evolutionary optimization strategy based on the derandomized evolution strategy with covariance matrix adaptation (CMA-ES). This new approach is intended to reduce the number of generations required for convergence to the optimum. Reducing the number of generations, i.e., the time complexity of the algorithm, is important if a large population size is desired: (1) to reduce the effect of noise; (2) to improve global search properties; and (3) to implement the algorithm on (highly) parallel machines. Our method results in a highly parallel algorithm which scales favorably with large numbers of processors. This is accomplished by efficiently incorporating the available information from a large population, thus significantly reducing the number of generations needed to adapt the covariance matrix. The original version of the CMA-ES was designed to reliably adapt the covariance matrix in small populations but it cannot exploit large populations efficiently. Our modifications scale up the efficiency to population sizes of up to 10n, where n is the problem dimension. This method has been applied to a large number of test problems, demonstrating that in many cases the CMA-ES can be advanced from quadratic to linear time complexity.

Quality control in the endoplasmic reticulum

Abstract: The endoplasmic reticulum (ER) has a quality-control system for 'proof-reading' newly synthesized proteins, so that only native conformers reach their final destinations. Non-native conformers and incompletely assembled oligomers are retained, and, if misfolded persistently, they are degraded. As a large fraction of ER-synthesized proteins fail to fold and mature properly, ER quality control is important for the fidelity of cellular functions. Here, we discuss recent progress in understanding the conformation-specific sorting of proteins at the level of ER retention and export.

Recent developments in compact ultrafast lasers

Abstract: Ultrafast lasers, which generate optical pulses in the picosecond and femtosecond range, have progressed over the past decade from complicated and specialized laboratory systems to compact, reliable instruments. Semiconductor lasers for optical pumping and fast optical saturable absorbers, based on either semiconductor devices or the optical nonlinear Kerr effect, have dramatically improved these lasers and opened up new frontiers for applications with extremely short temporal resolution (much smaller than 10 fs), extremely high peak optical intensities (greater than 10 TW/cm2) and extremely fast pulse repetition rates (greater than 100 GHz).

Optical coherence tomography - principles and applications

Abstract: There have been three basic approaches to optical tomography since the early 1980s: diffraction tomography, diffuse optical tomography and optical coherence tomography (OCT). Optical techniques are of particular importance in the medical field, because these techniques promise to be safe and cheap and, in addition, offer a therapeutic potential. Advances in OCT technology have made it possible to apply OCT in a wide variety of applications but medical applications are still dominating. Specific advantages of OCT are its high depth and transversal resolution, the fact, that its depth resolution is decoupled from transverse resolution, high probing depth in scattering media, contact-free and non-invasive operation, and the possibility to create various function dependent image contrasting methods. This report presents the principles of OCT and the state of important OCT applications. OCT synthesises cross-sectional images from a series of laterally adjacent depth-scans. At present OCT is used in three different fields of optical imaging, in macroscopic imaging of structures which can be seen by the naked eye or using weak magnifications, in microscopic imaging using magnifications up to the classical limit of microscopic resolution and in endoscopic imaging, using low and medium magnification. First, OCT techniques, like the reflectometry technique and the dual beam technique were based on time-domain low coherence interferometry depth-scans. Later, Fourier-domain techniques have been developed and led to new imaging schemes. Recently developed parallel OCT schemes eliminate the need for lateral scanning and, therefore, dramatically increase the imaging rate. These schemes use CCD cameras and CMOS detector arrays as photodetectors. Video-rate three-dimensional OCT pictures have been obtained. Modifying interference microscopy techniques has led to high-resolution optical coherence microscopy that achieved sub-micrometre resolution. This report is concluded with a short presentation of important OCT applications. Ophthalmology is, due to the transparent ocular structures, still the main field of OCT application. The first commercial instrument too has been introduced for ophthalmic diagnostics (Carl Zeiss Meditec AG). Advances in using near-infrared light, however, opened the path for OCT imaging in strongly scattering tissues. Today, optical in vivo biopsy is one of the most challenging fields of OCT application. High resolution, high penetration depth, and its potential for functional imaging attribute to OCT an optical biopsy quality, which can be used to assess tissue and cell function and morphology in situ. OCT can already clarify the relevant architectural tissue morphology. For many diseases, however, including cancer in its early stages, higher resolution is necessary. New broad-bandwidth light sources, like photonic crystal fibres and superfluorescent fibre sources, and new contrasting techniques, give access to new sample properties and unmatched sensitivity and resolution.

IMPACT 2002+: A new life cycle impact assessment methodology

Abstract: The new IMPACT 2002+ life cycle impact assessment methodology proposes a feasible implementation of a combined midpoint/damage approach, linking all types of life cycle inventory results (elementary flows and other interventions) via 14 midpoint categories to four damage categories. For IMPACT 2002+, new concepts and methods have been developed, especially for the comparative assessment of human toxicity and ecotoxicity. Human Damage Factors are calculated for carcinogens and non-carcinogens, employing intake fractions, best estimates of dose-response slope factors, as well as severities. The transfer of contaminants into the human food is no more based on consumption surveys, but accounts for agricultural and livestock production levels. Indoor and outdoor air emissions can be compared and the intermittent character of rainfall is considered. Both human toxicity and ecotoxicity effect factors are based on mean responses rather than on conservative assumptions. Other midpoint categories are adapted from existing characterizing methods (Eco-indicator 99 and CML 2002). All midpoint scores are expressed in units of a reference substance and related to the four damage categories human health, ecosystem quality, climate change, and resources. Normalization can be performed either at midpoint or at damage level. The IMPACT 2002+ method presently provides characterization factors for almost 1500 different LCI-results, which can be downloaded at http://www.epfl.ch/impact

Semidefinite programming relaxations for semialgebraic problems

Abstract: A hierarchy of convex relaxations for semialgebraic problems is introduced. For questions reducible to a finite number of polynomial equalities and inequalities, it is shown how to construct a complete family of polynomially sized semidefinite programming conditions that prove infeasibility. The main tools employed are a semidefinite programming formulation of the sum of squares decomposition for multivariate polynomials, and some results from real algebraic geometry. The techniques provide a constructive approach for finding bounded degree solutions to the Positivstellensatz, and are illustrated with examples from diverse application fields.

A general method for the covalent labeling of fusion proteins with small molecules in vivo

Abstract: Characterizing the movement, interactions, and chemical microenvironment of a protein inside the living cell is crucial to a detailed understanding of its function. Most strategies aimed at realizing this objective are based on genetically fusing the protein of interest to a reporter protein that monitors changes in the environment of the coupled protein. Examples include fusions with fluorescent proteins, the yeast two-hybrid system, and split ubiquitin. However, these techniques have various limitations, and considerable effort is being devoted to specific labeling of proteins in vivo with small synthetic molecules capable of probing and modulating their function. These approaches are currently based on the noncovalent binding of a small molecule to a protein, the formation of stable complexes between biarsenical compounds and peptides containing cysteines, or the use of biotin acceptor domains. Here we describe a general method for the covalent labeling of fusion proteins in vivo that complements existing methods for noncovalent labeling of proteins and that may open up new ways of studying proteins in living cells.

A stable quasi-solid-state dye-sensitized solar cell with an amphiphilic ruthenium sensitizer and polymer gel electrolyte.

Abstract: Dye-sensitized nanocrystalline solar cells (DSC) have received considerable attention as a cost-effective alternative to conventional solar cells. One of the main factors that has hampered widespread practical use of DSC is the poor thermostability encountered so far with these devices. Here we show a DSC with unprecedented stable performance under both thermal stress and soaking with light, matching the durability criteria applied to silicon solar cells for outdoor applications. The cell uses the amphiphilic ruthenium sensitizer cis-RuLL'(SCN)(2) (L = 4,4'-dicarboxylic acid-2,2'-bipyridine, L' = 4,4'-dinonyl-2,2'-bipyridine) in conjunction with a quasi-solid-state polymer gel electrolyte, reaching an efficiency of >6% in full sunlight (air mass 1.5, 100 mW cm(-2)). A convenient and versatile new route is reported for the synthesis of the heteroleptic ruthenium complex, which plays a key role in achieving the high-temperature stability. Ultramicroelectrode voltammetric measurements show that the triiodide/iodide couple can perform charge transport freely in the polymer gel. The cell sustained heating for 1,000 h at 80 degrees C, maintaining 94% of its initial performance. The device also showed excellent stability under light soaking at 55 degrees C for 1,000 h in a solar simulator (100 mW cm(-2)) equipped with a ultraviolet filter. The present findings should foster widespread practical application of dye-sensitized solar cells.

Synthetic matrix metalloproteinase-sensitive hydrogels for the conduction of tissue regeneration: Engineering cell-invasion characteristics

Abstract: Synthetic hydrogels have been molecularly engineered to mimic the invasive characteristics of native provisional extracellular matrices: a combination of integrin-binding sites and substrates for matrix metalloproteinases (MMP) was required to render the networks degradable and invasive by cells via cell-secreted MMPs. Degradation of gels was engineered starting from a characterization of the degradation kinetics (kcat and Km) of synthetic MMP substrates in the soluble form and after crosslinking into a 3D hydrogel network. Primary human fibroblasts were demonstrated to proteolytically invade these networks, a process that depended on MMP substrate activity, adhesion ligand concentration, and network crosslinking density. Gels used to deliver recombinant human bone morphogenetic protein-2 to the site of critical defects in rat cranium were completely infiltrated by cells and remodeled into bony tissue within 4 wk at a dose of 5 μg per defect. Bone regeneration was also shown to depend on the proteolytic sensitivity of the matrices. These hydrogels may be useful in tissue engineering and cell biology as alternatives for naturally occurring extracellular matrix-derived materials such as fibrin or collagen.

Ferroelectric materials for microwave tunable applications

Abstract: A review of the properties of ferroelectric materials that are relevant to microwave tunable devices is presented: we discuss the theory of dielectric response of tunable bulk materials and thin films; the experimental results from the literature and from own work are reviewed; the correspondence between the theoretical results and the measured properties of tunable materials is critically analyzed; nominally pure, real (defected), and composite bulk materials and thin films are addressed. In addition, techniques for characterization of tunable ferroelectrics and applications of these materials are briefly presented.

Stimulating cooperation in self-organizing mobile ad hoc networks

Abstract: In military and rescue applications of mobile ad hoc networks, all the nodes belong to the same authority; therefore, they are motivated to cooperate in order to support the basic functions of the network In this paper, we consider the case when each node is its own authority and tries to maximize the benefits it gets from the network More precisely, we assume that the nodes are not willing to forward packets for the benefit of other nodes This problem may arise in civilian applications of mobile ad hoc networks In order to stimulate the nodes for packet forwarding, we propose a simple mechanism based on a counter in each node We study the behavior of the proposed mechanism analytically and by means of simulations, and detail the way in which it could be protected against misuse

On the Water−Carbon Interaction for Use in Molecular Dynamics Simulations of Graphite and Carbon Nanotubes

Abstract: A systematic molecular dynamics study shows that the contact angle of a water droplet on graphite changes significantly as a function of the water−carbon interaction energy. Together with the observation that a linear relationship can be established between the contact angle and the water monomer binding energy on graphite, a new route to calibrate interaction potential parameters is presented. Through a variation of the droplet size in the range from 1000 to 17 500 water molecules, we determine the line tension to be positive and on the order of 2 × 10-10 J/m. To recover a macroscopic contact angle of 86°, a water monomer binding energy of −6.33 kJ mol-1 is required, which is obtained by applying a carbon−oxygen Lennard-Jones potential with the parameters eCO = 0.392 kJ mol-1 and σCO = 3.19 A. For this new water−carbon interaction potential, we present density profiles and hydrogen bond distributions for a water droplet on graphite.

BIOGEME: a free package for the estimation of discrete choice models

Abstract: Reference TRANSP-OR-CONF-2006-048 URL: http://transp-or.epfl.ch/documents/proceedings/Bier03.pdf URL: http://www.strc.ch/Paper/bierlaire.pdf Record created on 2008-02-15, modified on 2017-12-15

Gelation of Ionic Liquid-Based Electrolytes with Silica Nanoparticles for Quasi-Solid-State Dye-Sensitized Solar Cells

Abstract: For the first time silica nanoparticles were used to solidify ionic liquids. These ionic liquid-based quasi-solid-state electrolytes were successfully employed for regenerative photoelectrochemical cells that yielded 7% efficiency at AM 1.5 sunlight in combination with an amphiphilic ruthenium polypyridyl photosensitizer.

k-t BLAST and k-t SENSE: Dynamic MRI with high frame rate exploiting spatiotemporal correlations

Abstract: Dynamic images of natural objects exhibit significant correlations in k-space and time. Thus, it is feasible to acquire only a reduced amount of data and recover the missing portion afterwards. This leads to an improved temporal resolution, or an improved spatial resolution for a given amount of acquisition. Based on this approach, two methods were developed to significantly improve the performance of dynamic imaging, named k-t BLAST (Broad-use Linear Acquisition Speed-up Technique) and k-t SENSE (SENSitivity Encoding) for use with a single or multiple receiver coils, respectively. Signal correlations were learned from a small set of training data and the missing data were recovered using all available information in a consistent and integral manner. The general theory of k-t BLAST and k-t SENSE is applicable to arbitrary k-space trajectories, timevarying coil sensitivities, and under- and overdetermined reconstruction problems. Examples from ungated cardiac imaging demonstrate a 4-fold acceleration (voxel size 2.42 2.52 mm 2 , 38.4 fps) with either one or six receiver coils. k-t BLAST and k-t SENSE are applicable to many areas, especially those exhibiting quasiperiodic motion, such as imaging of the heart, the lungs, the abdomen, and the brain under periodic stimulation. Magn Reson Med 50:1031–1042, 2003. © 2003 Wiley-Liss, Inc.

Model transformation: the heart and soul of model-driven software development

Abstract: The model-driven approach can increase development productivity and quality by describing important aspects of a solution with human-friendly abstractions and by generating common application fragments with templates. This article examines different approaches to model transformations and recommends desirable language characteristics for describing them.

Electrogeneration of Hydroxyl Radicals on Boron-Doped Diamond Electrodes

Abstract: The electrogeneration of hydroxyl radicals was studied at a synthetic B-doped diamond (BDD) thin film electrode. Spin trapping was used for detection of hydroxyl radicals with 5,5-dimethyl-1-pyrroline-N-oxide and with salicylic acid using ESR and liq. chromatog. measurements, resp. The prodn. of H2O2 and competitive oxidn. of formic and oxalic acids were also studied using bulk electrolysis. Oxidn. of salicylic acid gives hydroxylated products (2,3- and 2,5-dihydroxybenzoic acids). The oxidn. process on BDD electrodes involves hydroxyl radicals as electrogenerated intermediates. [on SciFinder (R)]

Ambulatory system for human motion analysis using a kinematic sensor: monitoring of daily physical activity in the elderly

Abstract: A new method of physical activity monitoring is presented, which is able to detect body postures (sifting, standing, and lying) and periods of walking in elderly persons using only one kinematic sensor attached to the chest. The wavelet transform, in conjunction with a simple kinematics model, was used to detect different postural transitions (PTs) and walking periods during daily physical activity. To evaluate the system, three studies were performed. The method was first tested on 11 community-dwelling elderly subjects in a gait laboratory where an optical motion system (Vicon) was used as a reference system. In the second study, the system was tested for classifying PTs (i.e., lying-to-sitting, sitting-to-lying, and turning the body in bed) in 24 hospitalized elderly persons. Finally, in a third study monitoring was performed on nine elderly persons for 45-60 min during their daily physical activity. Moreover, the possibility-to-perform long-term monitoring over 12 h has been shown. The first study revealed a close concordance between the ambulatory and reference systems. Overall, subjects performed 349 PTs during this study. Compared with the reference system, the ambulatory system had an overall sensitivity of 99% for detection of the different PTs. Sensitivities and specificities were 93% and 82% in sit-to-stand, and 82% and 94% in stand-to-sit, respectively. In both first and second studies, the ambulatory system also showed a very high accuracy (> 99%) in identifying the 62 transfers or rolling out of bed, as well as 144 different posture changes to the back, ventral, right and left sides. Relatively high sensitivity (> 90%) was obtained for the classification of usual physical activities in the third study in comparison with visual observation. Sensitivities and specificities were, respectively, 90.2% and 93.4% in sitting, 92.2% and 92.1% in "standing + walking," and, finally, 98.4% and 99.7% in lying. Overall detection errors (as percent of range) were 3.9% for "standing + walking," 4.1% for sitting, and 0.3% for lying. Finally, overall symmetric mean average errors were 12% for "standing + walking." 8.2% for sifting, and 1.3% for lying.

Rapid Induction of Distinct Stress Responses after the Release of Singlet Oxygen in Arabidopsis

Abstract: The conditional fluorescent (flu) mutant of Arabidopsis accumulates the photosensitizer protochlorophyllide in the dark. After a dark-to-light shift, the generation of singlet oxygen, a nonradical reactive oxygen species, starts within the first minute of illumination and was shown to be confined to plastids. Immediately after the shift, plants stopped growing and developed necrotic lesions. These early stress responses of the flu mutant do not seem to result merely from physicochemical damage. Peroxidation of chloroplast membrane lipids in these plants started rapidly and led to the transient and selective accumulation of a stereospecific and regiospecific isomer of hydroxyoctadecatrieonic acid, free (13S)-HOTE, that could be attributed almost exclusively to the enzymatic oxidation of linolenic acid. Within the first 15 min of reillumination, distinct sets of genes were activated that were different from those induced by superoxide/hydrogen peroxide. Collectively, these results demonstrate that singlet oxygen does not act primarily as a toxin but rather as a signal that activates several stress-response pathways. Its biological activity in Arabidopsis exhibits a high degree of specificity that seems to be derived from the chemical identity of this reactive oxygen species and/or the intracellular location at which it is generated.

Investigation of Sensitizer Adsorption and the Influence of Protons on Current and Voltage of a Dye-Sensitized Nanocrystalline TiO2 Solar Cell

Abstract: FTIR spectra of [Ru(dcbpyH2)2(NCS)2] (N3), (Bu4N)2[Ru(dcbpyH)2(NCS)2] (N719), and (Bu4N)4[Ru(dcbpy)2(NCS)2] (N712) complexes measured as solid samples in photoacoustic mode display fine resolution of IR bands and exhibit differences between the cis and the trans carboxylic acid groups. The interaction between N3, N719, and N712 sensitizers with nanocrystalline TiO2 film was investigated by ATR-FTIR spectroscopy. The data show that these complexes are being anchored onto the TiO2 surface in bridging coordination mode using two out of their four carboxylic acid groups, which are trans to the NCS ligand. The effect of protons on both the short circuit photocurrent and the open circuit photovoltage of dye-sensitized nanocrystalline solar cells was scrutinized. For the standard electrolyte formulation employed and TiCl4 treated mesoporous TiO2 films, the monoprotonated form of the N3 dye exhibited superior power conversion efficiency under AM 1.5 sun compared to the four, two, and zero proton sensitizers.

Enhance the Performance of Dye-Sensitized Solar Cells by Co-grafting Amphiphilic Sensitizer and Hexadecylmalonic Acid on TiO2 Nanocrystals

Abstract: Dye-sensitized solar cells have been fabricated based on nanocrystalline TiO2 film derivatized with an amphiphilic polypyridyl ruthenium complex, cis-RuLL‘(SCN)2 (L = 4,4‘-dicarboxylic acid-2,2‘-bipyridine, L‘ = 4,4‘-dinonyl-2,2‘-bipyridine), as light-harvester and hexadecylmalonic acid (HDMA) as coadsorbent. The cells generated a short-circuit photocurrent of 15.2 mA cm-2, an open-circuit photovoltage of 764 mV, and a total power conversion efficiency of 7.8% under simulated full sunlight (air mass 1.5, 100 mW cm-2). Co-grafting enhanced the photocurrent, photovoltage, and overall conversion efficiency considerably with respect to cells containing no HDMA. Devices showed a good stability under light soaking at 55 °C.