Institut für Medizintechnik und Medizininformatik
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Ergebnisse nach Hochschule und Institut
Publikation Augmented feedback system to support physical therapy of non-specific low back pain(Springer, 2010) Brodbeck, Dominique; Degen, Markus; Stanimirov, Michael; Kool, Jan; Scheermesser, Mandy; Oesch, Peter; Neuhaus, Cornelia; Fred, Ana; Filipe, Joaquim; Gamboa, HugoLow back pain is an important problem in industrialized countries. Two key factors limit the effectiveness of physiotherapy: low compliance of patients with repetitive movement exercises, and inadequate awareness of patients of their own posture. The Backtrainer system addresses these problems by real-time monitoring of the spine position, by providing a framework for most common physiotherapy exercises for the low back, and by providing feedback to patients in a motivating way. A minimal sensor configuration was identified as two inertial sensors that measure the orientation of the lower back at two points with three degrees of freedom. The software was designed as a flexible platform to experiment with different hardware, and with various feedback modalities. Basic exercises for two types of movements are provided: mobilizing and stabilizing. We developed visual feedback - abstract as well as in the form of a virtual reality game - and complemented the on-screen graphics with an ambient feedback device. The system was evaluated during five weeks in a rehabilitation clinic with 26 patients and 15 physiotherapists. Subjective satisfaction of subjects was good, and we interpret the results as encouraging indication for the adoption of such a therapy support system by both patients and therapists.04B - Beitrag KonferenzschriftPublikation Comparison of methods for phylogenetic B-cell lineage inference using time-resolved antibody repertoire simulations (AbSim)(Oxford University Press, 31.08.2017) Yermanos, Alexander; Greiff, Victor; Krautler, Nike Julia; Menzel, Ulrike; Dounas, Andreas; Miho, Enkelejda; Oxenius, Annette; Stadler, Tanja; Reddy, Sai T.; Kelso, JanetMotivation: The evolution of antibody repertoires represents a hallmark feature of adaptive B-cell immunity. Recent advancements in high-throughput sequencing have dramatically increased the resolution to which we can measure the molecular diversity of antibody repertoires, thereby offering for the first time the possibility to capture the antigen-driven evolution of B cells. However, there does not exist a repertoire simulation framework yet that enables the comparison of com monly utilized phylogenetic methods with regard to their accuracy in inferring antibody evolution.01A - Beitrag in wissenschaftlicher ZeitschriftPublikation Learning the high-dimensional immunogenomic features that predict public and private antibody repertoires(American Association of Immunologists, 15.10.2017) Greiff, Victor; Weber, Cédric R.; Palme, Johannes; Bodenhofer, Ulrich; Miho, Enkelejda; Menzel, Ulrike; Reddy, Sai T.Recent studies have revealed that immune repertoires contain a substantial fraction of public clones, which may be defined as Ab or TCR clonal sequences shared across individuals. It has remained unclear whether public clones possess predictable sequence features that differentiate them from private clones, which are believed to be generated largely stochastically. This knowledge gap represents a lack of insight into the shaping of immune repertoire diversity. Leveraging a machine learning approach capable of capturing the high-dimensional compositional information of each clonal sequence (defined by CDR3), we detected predictive public clone and private clone–specific immunogenomic differences concentrated in CDR3’s N1–D–N2 region, which allowed the prediction of public and private status with 80% accuracy in humans and mice. Our results unexpectedly demonstrate that public, as well as private, clones possess predictable high-dimensional immunogenomic features. Our support vector machine model could be trained effectively on large published datasets (3 million clonal sequences) and was sufficiently robust for public clone prediction across individuals and studies prepared with different library preparation and high-throughput sequencing protocols. In summary, we have uncovered the existence of high-dimensional immunogenomic rules that shape immune repertoire diversity in a predictable fashion. Our approach may pave the way for the construction of a comprehensive atlas of public mouse and human immune repertoires with potential applications in rational vaccine design and immunotherapeutics.01A - Beitrag in wissenschaftlicher ZeitschriftPublikation Bioinformatic and statistical analysis of adaptive immune repertoires(Cell Press, 10/2015) Greiff, Victor; Miho, Enkelejda; Menzel, Ulrike; Reddy, Sai T.High-throughput sequencing (HTS) of immune repertoires has enabled the quantitative analysis of adaptive immune responses and offers the potential to revolutionize research in lymphocyte biology, vaccine profiling, and mono clonal antibody engineering. Advances in sequencing technology coupled to an exponential decline in sequencing costs have fueled the recent over whelming interest in immune repertoire sequencing. This, in turn, has sparked the development of numerous methods for bioinformatic and statistics-driven interpretation and visualization of immune repertoires. Here, we review the current literature on bioinformatic and statistical analysis of immune reper toire HTS data and discuss underlying assumptions, applicability, and scope. We further highlight important directions for future research, which could propel immune repertoire HTS to becoming a standard method for measuring adaptive immune responses.01A - Beitrag in wissenschaftlicher ZeitschriftPublikation Augmenting adaptive immunity. Progress and challenges in the quantitative engineering and analysis of adaptive immune receptor repertoires(Royal Society of Chemistry, 2019) Brown, Alex J.; Snapkov, Igor; Akbar, Rahmad; Pavlović, Milena; Miho, Enkelejda; Sandve, Geir K.; Greiff, VictorThe adaptive immune system is a natural diagnostic sensor and therapeutic. It recognizes threats earlier than clinical symptoms manifest and neutralizes antigens with exquisite specificity. Recognition specificity and broad reactivity are enabled via adaptive B- and T-cell receptors: the immune receptor repertoire. The human immune system, however, is not omnipotent. Our natural defense system sometimes loses the battle to parasites and microbes and even turns against us in the case of cancer and (autoimmune) inflammatory disease. A long-standing dream of immunoengineers has been, therefore, to mechanistically understand how the immune system “sees”, “reacts” and “remembers” (auto)antigens. Only very recently, experimental and computational methods have achieved sufficient quantitative resolution to start querying and engineering adaptive immunity with high precision. Specifically, these innovations have been applied with the greatest fervency and success in immunotherapy, autoimmunity and vaccine design. The work here highlights advances, challenges and future directions of quantitative approaches which seek to advance the fundamental understanding of immunological phenomena, and reverse engineer the immune system to produce auspicious biopharmaceutical drugs and immunodiagnostics. Our review shows how the merger of fundamental immunology, computational immunology and (digital) biotechnology advances both immunological knowledge and immunoengineering methodologies.01A - Beitrag in wissenschaftlicher ZeitschriftPublikation Single-molecule real-time sequencing of the M protein.Toward personalized medicine in monoclonal gammopathies(Wiley, 05.08.2022) Cascino, Pasquale; Nevone, Alice; Piscitelli, Maggie; Scopelliti, Claudia; Girelli, Maria; Mazzini, Giulia; Caminito, Serena; Russo, Giancarlo; Milani, Paolo; Basset, Marco; Foli, Andrea; Fazio, Francesca; Casarini, Simona; Massa, Margherita; Bozzola, Margherita; Ripepi, Jessica; Sesta, Melania Antonietta; Acquafredda, Gloria; De Cicco, Marica; Moretta, Antonia; Rognoni, Paola; Milan, Enrico; Ricagno, Stefano; Lavatelli, Francesca; Petrucci, Maria Teresa; Miho, Enkelejda; Klersy, Catherine; Merlini, Giampaolo; Palladini, Giovanni; Nuvolone, Mario01A - Beitrag in wissenschaftlicher ZeitschriftPublikation Molecular assembly and self‐assembly: molecular nanoscience for future technologies(2003) de Wild, Michael; Berner, Simon; Suzuki, Hitoshi; Ramoino, Luca; Baratoff, Alexis; Jung, Thomas A.In this review the emerging science of single molecules is discussed in the perspective of nanoscale molecular functions and devices. New methods for the controlled assembly of well-defined molecular nanostructures are pre- sented: self assembly and single molecular positioning. The observation and selective modification of conformation, electronics, and molecular mechanics of individual molecules and molecular assemblies by scanning probes is dem- onstrated. To complement this scientific review, some of the possible conse- quences and visions for future developments are discussed, as far as they derive from the presented systems. The prospects of nanoscale science to stim- ulate technological evolution are exemplified.01A - Beitrag in wissenschaftlicher ZeitschriftPublikation Hematocrit measurement - a high precision on-line measurement system based on impedance spectroscopy for use in hemodialysis machines(2009) Trebbels, Dennis; Zengerle, Roland; Hradetzky, DavidThis paper presents a unique technical approach to measure the proportion of blood volume occupied by red blood cells, the hematocrit value (HCT) on-line and in-line. A practical method has been developed to measure without the need for extracting blood samples out of an existing extracorporeal blood circulation system. The new sensor is based on Impedance Spectroscopy and measures electrical properties of the blood at various frequencies. In order to achieve the required precision resolution the sensor geometry has been optimized by Finite Element Analysis. For sensor readout a digital measurement circuitry based on cheap standard components is developed and allows practical implementation of HCT-sensor devices for the first time. Special care has been taken in order to compensate for the temperature effects.04B - Beitrag KonferenzschriftPublikation Graphics-processor-unit-based parallelization of optimized baseline wander filtering algorithms for long-term electrocardiography(IEEE, 2015) Niederhauser, Thomas; Wyss-Balmer, Thomas; Haeberlin, Andreas; Marisa, Thanks; Wildhaber, Reto; Goette, Josef; Jacomet, Marcel; Vogel, RolfLong-term electrocardiogram (ECG) often suffers from relevant noise. Baseline wander in particular is pronounced in ECG recordings using dry or esophageal electrodes, which are dedicated for prolonged registration. While analog high-pass filters introduce phase distortions, reliable offline filtering of the baseline wander implies a computational burden that has to be put in relation to the increase in signal-to-baseline ratio (SBR). Here, we present a graphics processor unit (GPU)-based parallelization method to speed up offline baseline wander filter algorithms, namely the wavelet, finite, and infinite impulse response, moving mean, and moving median filter. Individual filter parameters were optimized with respect to the SBR increase based on ECGs from the Physionet database superimposed to autoregressive modeled, real baseline wander. A Monte-Carlo simulation showed that for low input SBR the moving median filter outperforms any other method but negatively affects ECG wave detection. In contrast, the infinite impulse response filter is preferred in case of high input SBR. However, the parallelized wavelet filter is processed 500 and four times faster than these two algorithms on the GPU, respectively, and offers superior baseline wander suppression in low SBR situations. Using a signal segment of 64 mega samples that is filtered as entire unit, wavelet filtering of a seven-day high-resolution ECG is computed within less than 3 s. Taking the high filtering speed into account, the GPU wavelet filter is the most efficient method to remove baseline wander present in long-term ECGs, with which computational burden can be strongly reduced.01A - Beitrag in wissenschaftlicher ZeitschriftPublikation Interferometric label-free biomolecular detection system(IOP Publishing Ltd, 2006) Hradetzky, David; Mueller, Claas; Reinecke, HolgerThis work presents a simple evanescent wave sensing system based on an interferometric approach, suitable to meet the requirements of label-free sensor systems for detecting biomolecular interactions. It represents a basic concept towards label-free detection systems in various applications. The basic objectives of transducers for evanescent wave sensing are discussed. An optical detection system based on a interferometric approach using Young's double slit configuration is discussed, set-up and characterized. With refractometric measurements of various sucrose dilutions, the performance of the pure optical set-up is evaluated.01A - Beitrag in wissenschaftlicher Zeitschrift