1,372 results on '"Kuhnert P"'
Search Results
2. Immunometabolic cues recompose and reprogram the microenvironment around implanted biomaterials
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Maduka, Chima V., Schmitter-Sánchez, Axel D., Makela, Ashley V., Ural, Evran, Stivers, Katlin B., Pope, Hunter, Kuhnert, Maxwell M., Habeeb, Oluwatosin M., Tundo, Anthony, Alhaj, Mohammed, Kiselev, Artem, Chen, Shoue, Donneys, Alexis, Winton, Wade P., Stauff, Jenelle, Scott, Peter J. H., Olive, Andrew J., Hankenson, Kurt D., Narayan, Ramani, Park, Sangbum, Elisseeff, Jennifer H., and Contag, Christopher H.
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- 2024
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3. Correction to: Modeling evaporation with a meshfree collocation approach
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Lee, JungHoon, Bäder, Dirk, Rehfeldt, Sebastian, Eisenträger, Almut, Kuhnert, Jörg, Michel, Isabel, Suchde, Pratik, and Klein, Harald
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- 2024
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4. Gaussian Ensemble Belief Propagation for Efficient Inference in High-Dimensional Systems
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MacKinlay, Dan, Tsuchida, Russell, Pagendam, Dan, and Kuhnert, Petra
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Computer Science - Machine Learning ,Statistics - Machine Learning ,62-07 (Primary) 62F15, 62M40, 68T05, 68W25 ,I.2.6 ,H.2.4 ,I.2.8 ,J.2 - Abstract
Efficient inference in high-dimensional models is a central challenge in machine learning. We introduce the Gaussian Ensemble Belief Propagation (GEnBP) algorithm, which combines the strengths of the Ensemble Kalman Filter (EnKF) and Gaussian Belief Propagation (GaBP) to address this challenge. GEnBP updates ensembles of prior samples into posterior samples by passing low-rank local messages over the edges of a graphical model, enabling efficient handling of high-dimensional states, parameters, and complex, noisy, black-box generation processes. By utilizing local message passing within a graphical model structure, GEnBP effectively manages complex dependency structures and remains computationally efficient even when the ensemble size is much smaller than the inference dimension -- a common scenario in spatiotemporal modeling, image processing, and physical model inversion. We demonstrate that GEnBP can be applied to various problem structures, including data assimilation, system identification, and hierarchical models, and show through experiments that it outperforms existing belief propagation methods in terms of accuracy and computational efficiency. Supporting code is available at https://github.com/danmackinlay/GEnBP, Comment: Under conference submission
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- 2024
5. Resolving Ethics Trade-offs in Implementing Responsible AI
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Sanderson, Conrad, Schleiger, Emma, Douglas, David, Kuhnert, Petra, and Lu, Qinghua
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Computer Science - Computers and Society ,Computer Science - Artificial Intelligence ,68T01 ,K.4.1 ,I.2.m ,C.4 - Abstract
While the operationalisation of high-level AI ethics principles into practical AI/ML systems has made progress, there is still a theory-practice gap in managing tensions between the underlying AI ethics aspects. We cover five approaches for addressing the tensions via trade-offs, ranging from rudimentary to complex. The approaches differ in the types of considered context, scope, methods for measuring contexts, and degree of justification. None of the approaches is likely to be appropriate for all organisations, systems, or applications. To address this, we propose a framework which consists of: (i) proactive identification of tensions, (ii) prioritisation and weighting of ethics aspects, (iii) justification and documentation of trade-off decisions. The proposed framework aims to facilitate the implementation of well-rounded AI/ML systems that are appropriate for potential regulatory requirements.
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- 2024
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6. Physical activity and psychopathology: are long-term developmental trajectories of physical activity in children and adolescents associated with trajectories of general mental health problems and of attention-deficit hyperactivity (ADHD) symptoms?
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Ganjeh, Parisa, Hagmayer, York, Meyer, Thomas, Kuhnert, Ronny, Ravens-Sieberer, Ulrike, von Steinbuechel, Nicole, Rothenberger, Aribert, and Becker, Andreas
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- 2024
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7. The use of nonpharmacological interventions for chronic pain treatment in community-dwelling older adults with a certified need for care
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Koios, Daniela, Kuhnert, Ronny, Dräger, Dagmar, Wenzel, Arlett, Kreutz, Reinhold, and Budnick, Andrea
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- 2024
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8. Parameter identification by deep learning of a material model for granular media
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Tanyu, Derick Nganyu, Michel, Isabel, Rademacher, Andreas, Kuhnert, Jörg, and Maass, Peter
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- 2024
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9. Functional surface expression of immunoglobulin cleavage systems in a candidate Mycoplasma vaccine chassis
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Torres-Puig, Sergi, Crespo-Pomar, Silvia, Akarsu, Hatice, Yimthin, Thatcha, Cippà, Valentina, Démoulins, Thomas, Posthaus, Horst, Ruggli, Nicolas, Kuhnert, Peter, Labroussaa, Fabien, and Jores, Jörg
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- 2024
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10. Unraveling intragenomic polymorphisms in the high-quality genome of Hypoxylaceae: a comprehensive study of the rDNA cistron
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Cedeño-Sanchez, Marjorie, Cheng, Tian, Lambert, Christopher, Kolarík, Miroslav, Kuhnert, Eric, Cox, Russell J., Kalinowski, Jörn, Verwaaijen, Bart, and Stadler, Marc
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- 2024
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11. Association of Patients’ Knowledge on the Disease and Its Management with Indicators of Disease Severity and Individual Characteristics in Patients with Chronic Obstructive Pulmonary Disease (COPD): Results from COSYCONET 2
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Fischer C, Siakavara M, Alter P, Vogelmeier CF, Speicher T, Pott H, Watz H, Bals R, Trudzinski F, Herth F, Ficker JH, Wagner M, Lange C, Stoycheva K, Randerath W, Behr J, Fähndrich S, Welte T, Pink I, Kahnert K, Seeger W, Kuhnert S, Gessler T, Adaskina N, and Jörres RA
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copd ,symptom exacerbation ,patient acuity ,education ,knowledge ,Medicine (General) ,R5-920 - Abstract
Carolina Fischer,1,2 Maria Siakavara,1 Peter Alter,3 Claus Franz Vogelmeier,3 Tim Speicher,3 Hendrik Pott,4 Henrik Watz,5 Robert Bals,6,7 Franziska Trudzinski,8 Felix Herth,8 Joachim H Ficker,9 Manfred Wagner,9 Christoph Lange,10 Krista Stoycheva,10 Winfried Randerath,11 Jürgen Behr,12,13 Sebastian Fähndrich,14 Tobias Welte15 ,† Isabell Pink,15 Kathrin Kahnert,12,16 Werner Seeger,17 Stefan Kuhnert,17 Tobias Gessler,17 Nina Adaskina,18 Rudolf A Jörres1 1Institute and Outpatient Clinic for Occupational, Social and Environmental Medicine, University Hospital, LMU Munich, Comprehensive Pneumology Center Munich (CPC-M), Member of the German Center for Lung Research (DZL), Munich, Bavaria, Germany; 2Department of Medicine I, Division of Respiratory Diseases, School of Medicine & Klinikum rechts der Isar, Technical University of Munich, Munich, Bavaria, Germany; 3Department of Medicine, Pulmonary, Critical Care and Sleep Medicine, Philipps University of Marburg (UMR), Member of the German Center for Lung Research (DZL), Marburg, Hesse, Germany; 4Section of Airway Infections, Department of Medicine, Pulmonary and Critical Care Medicine, Philipps University of Marburg (UMR), Marburg, Hesse, Germany; 5Pulmonary Research Institute at LungenClinic Grosshansdorf, Airway Research Center North (ARCN), Member of the German Center for Lung Research (DZL), Grosshansdorf, Schlewig-Holstein, Germany; 6Department of Internal Medicine V, Pulmonology, Allergology, Critical Care Medicine, Saarland University Hospital, Homburg, Saarland, Germany; 7Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), Helmholtz Centre for Infection Research (HZI), Saarland University Campus, Saarbrücken, Saarland, Germany; 8Department of Pneumology and Critical Care Medicine, Thoraxklinik, University of Heidelberg, Translational Lung Research Center Heidelberg (TLRC-H), Member of the Center for Lung Research (DZL), Heidelberg, Baden-Wuerttemberg, Germany; 9Department of Respiratory Medicine, Allergology and Sleep Medicine, Klinikum Nuremberg, Nürnberg, Bavaria, Germany; 10Clinical Infectious Diseases, Research Center Borstel, Borstel, Germany; German Center for Infection Research (DZIF), Standort Hamburg-Lübeck-Borstel-Riems, Germany; Respiratory Medicine & International Health, University of Lübeck, Lübeck, Schleswig-Holstein, Germany; 11Krankenhaus Bethanien gGmbH, Klinik für Pneumologie und Allergologie, Zentrum für Schlaf- und Beatmungsmedizin, Solingen, North-Rhine Westphalia, Germany; 12Department of Medicine V, LMU University Hospital, LMU Munich, Comprehensive Pneumology Center Munich (CPC-M), German Center for Lung Research (DZL), Munich, Bavaria, Germany; 13Asklepios Fachkliniken München-Gauting, Gauting, Germany; 14Department of Pneumology, Faculty of Medicine, Medical Center, University of Freiburg, Baden-Wuerttemberg, Germany; 15Clinic for Pneumology, Hannover Medical School, Member of the German Center for Lung Research (DZL), Hannover, Lower Saxony, Germany; 16MediCenterGermering, Germering, Bavaria, Germany; 17University of Giessen and Marburg Lung Center (UGMLC), Member of the German Center for Lung Research (DZL), Justus-Liebig University Giessen, Hesse, Germany; 18CAPNETZ STIFTUNG, Hannover, Lower Saxony, Germany†Tobias We
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- 2024
12. Regulating the proinflammatory response to composite biomaterials by targeting immunometabolism
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Chima V. Maduka, Ashley V. Makela, Anthony Tundo, Evran Ural, Katlin B. Stivers, Maxwell M. Kuhnert, Mohammed Alhaj, Ehsanul Hoque Apu, Nureddin Ashammakhi, Kurt D. Hankenson, Ramani Narayan, Jennifer H. Elisseeff, and Christopher H. Contag
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Hydroxyapatite ,Polylactide ,Immunometabolism ,Inflammation ,Regenerative medicine ,Materials of engineering and construction. Mechanics of materials ,TA401-492 ,Biology (General) ,QH301-705.5 - Abstract
Composite biomaterials comprising polylactide (PLA) and hydroxyapatite (HA) are applied in bone, cartilage and dental regenerative medicine, where HA confers osteoconductive properties. However, after surgical implantation, adverse immune responses to these composites can occur, which have been attributed to size and morphology of HA particles. Approaches to effectively modulate these adverse immune responses have not been described. PLA degradation products have been shown to alter immune cell metabolism (immunometabolism), which drives the inflammatory response. Accordingly, to modulate the inflammatory response to composite biomaterials, inhibitors were incorporated into composites comprised of amorphous PLA (aPLA) and HA (aPLA + HA) to regulate glycolytic flux. Inhibition at specific steps in glycolysis reduced proinflammatory (CD86+CD206-) and increased pro-regenerative (CD206+) immune cell populations around implanted aPLA + HA. Notably, neutrophil and dendritic cell (DC) numbers along with proinflammatory monocyte and macrophage populations were decreased, and Arginase 1 expression among DCs was increased. Targeting immunometabolism to control the proinflammatory response to biomaterial composites, thereby creating a pro-regenerative microenvironment, is a significant advance in tissue engineering where immunomodulation enhances osseointegration and angiogenesis, which could lead to improved bone regeneration.
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- 2024
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13. UGainS: Uncertainty Guided Anomaly Instance Segmentation
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Nekrasov, Alexey, Hermans, Alexander, Kuhnert, Lars, and Leibe, Bastian
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Computer Science - Computer Vision and Pattern Recognition - Abstract
A single unexpected object on the road can cause an accident or may lead to injuries. To prevent this, we need a reliable mechanism for finding anomalous objects on the road. This task, called anomaly segmentation, can be a stepping stone to safe and reliable autonomous driving. Current approaches tackle anomaly segmentation by assigning an anomaly score to each pixel and by grouping anomalous regions using simple heuristics. However, pixel grouping is a limiting factor when it comes to evaluating the segmentation performance of individual anomalous objects. To address the issue of grouping multiple anomaly instances into one, we propose an approach that produces accurate anomaly instance masks. Our approach centers on an out-of-distribution segmentation model for identifying uncertain regions and a strong generalist segmentation model for anomaly instances segmentation. We investigate ways to use uncertain regions to guide such a segmentation model to perform segmentation of anomalous instances. By incorporating strong object priors from a generalist model we additionally improve the per-pixel anomaly segmentation performance. Our approach outperforms current pixel-level anomaly segmentation methods, achieving an AP of 80.08% and 88.98% on the Fishyscapes Lost and Found and the RoadAnomaly validation sets respectively. Project page: https://vision.rwth-aachen.de/ugains, Comment: Accepted for publication at GCPR 2023; Project page at https://vision.rwth-aachen.de/ugains
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- 2023
14. Parameter Identification by Deep Learning of a Material Model for Granular Media
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Tanyu, Derick Nganyu, Michel, Isabel, Rademacher, Andreas, Kuhnert, Jörg, and Maass, Peter
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Computer Science - Computational Engineering, Finance, and Science - Abstract
Classical physical modelling with associated numerical simulation (model-based), and prognostic methods based on the analysis of large amounts of data (data-driven) are the two most common methods used for the mapping of complex physical processes. In recent years, the efficient combination of these approaches has become increasingly important. Continuum mechanics in the core consists of conservation equations that -- in addition to the always necessary specification of the process conditions -- can be supplemented by phenomenological material models. The latter are an idealized image of the specific material behavior that can be determined experimentally, empirically, and based on a wealth of expert knowledge. The more complex the material, the more difficult the calibration is. This situation forms the starting point for this work's hybrid data-driven and model-based approach for mapping a complex physical process in continuum mechanics. Specifically, we use data generated from a classical physical model by the MESHFREE software to train a Principal Component Analysis-based neural network (PCA-NN) for the task of parameter identification of the material model parameters. The obtained results highlight the potential of deep-learning-based hybrid models for determining parameters, which are the key to characterizing materials occurring naturally, and their use in industrial applications (e.g. the interaction of vehicles with sand)., Comment: arXiv admin note: text overlap with arXiv:2212.03130
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- 2023
15. Cinnamon powder intake enhances the effect of caloric restriction on white adipose tissue in male rats
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Kuhnert, Lia Rafaella Ballard, Pontes, Roberta da Fonseca Coutinho, Neto, Jessika Geisebel Oliveira, Romão, Juliana Santos, Pinto, Carla Eponina de Carvalho, and Oliveira, Karen Jesus
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- 2025
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16. A Neural Emulator for Uncertainty Estimation of Fire Propagation
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Bolt, Andrew, Sanderson, Conrad, Dabrowski, Joel Janek, Huston, Carolyn, and Kuhnert, Petra
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Computer Science - Machine Learning ,Electrical Engineering and Systems Science - Image and Video Processing - Abstract
Wildfire propagation is a highly stochastic process where small changes in environmental conditions (such as wind speed and direction) can lead to large changes in observed behaviour. A traditional approach to quantify uncertainty in fire-front progression is to generate probability maps via ensembles of simulations. However, use of ensembles is typically computationally expensive, which can limit the scope of uncertainty analysis. To address this, we explore the use of a spatio-temporal neural-based modelling approach to directly estimate the likelihood of fire propagation given uncertainty in input parameters. The uncertainty is represented by deliberately perturbing the input weather forecast during model training. The computational load is concentrated in the model training process, which allows larger probability spaces to be explored during deployment. Empirical evaluations indicate that the proposed model achieves comparable fire boundaries to those produced by the traditional SPARK simulation platform, with an overall Jaccard index (similarity score) of 67.4% on a set of 35 simulated fires. When compared to a related neural model (emulator) which was employed to generate probability maps via ensembles of emulated fires, the proposed approach produces competitive Jaccard similarity scores while being approximately an order of magnitude faster.
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- 2023
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17. Higher-Order Generalized Finite Differences for Variable Coefficient Diffusion Operators
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Kraus, Heinrich, Kuhnert, Jörg, and Suchde, Pratik
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Mathematics - Numerical Analysis ,35J25, 35K20, 65M06, 65M70, 65N06, 65N35 - Abstract
We present a novel approach of discretizing variable coefficient diffusion operators in the context of meshfree generalized finite difference methods. Our ansatz uses properties of derived operators and combines the discrete Laplace operator with reconstruction functions approximating the diffusion coefficient. Provided that the reconstructions are of a sufficiently high order, we prove that the order of accuracy of the discrete Laplace operator transfers to the derived diffusion operator. We show that the new discrete diffusion operator inherits the diagonal dominance property of the discrete Laplace operator. Finally, we present the possibility of discretizing anisotropic diffusion operators with the help of derived operators. Our numerical results for Poisson's equation and the heat equation show that even low-order reconstructions preserve the order of the underlying discrete Laplace operator for sufficiently smooth diffusion coefficients. In experiments, we demonstrate the applicability of the new discrete diffusion operator to interface problems with point clouds not aligning to the interface and numerically show first-order convergence.
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- 2023
18. Multi-Camera Visual-Inertial Simultaneous Localization and Mapping for Autonomous Valet Parking
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Abate, Marcus, Schwartz, Ariel, Wong, Xue Iuan, Luo, Wangdong, Littman, Rotem, Klinger, Marc, Kuhnert, Lars, Blue, Douglas, and Carlone, Luca
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Computer Science - Robotics - Abstract
Localization and mapping are key capabilities for self-driving vehicles. In this paper, we build on Kimera and extend it to use multiple cameras as well as external (eg wheel) odometry sensors, to obtain accurate and robust odometry estimates in real-world problems. Additionally, we propose an effective scheme for closing loops that circumvents the drawbacks of common alternatives based on the Perspective-n-Point method and also works with a single monocular camera. Finally, we develop a method for dense 3D mapping of the free space that combines a segmentation network for free-space detection with a homography-based dense mapping technique. We test our system on photo-realistic simulations and on several real datasets collected on a car prototype developed by the Ford Motor Company, spanning both indoor and outdoor parking scenarios. Our multi-camera system is shown to outperform state-of-the art open-source visual-inertial-SLAM pipelines (Vins-Fusion, ORB-SLAM3), and exhibits an average trajectory error under 1% of the trajectory length across more than 8km of distance traveled (combined across all datasets). A video showcasing the system is available at: youtu.be/H8CpzDpXOI8.
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- 2023
19. Recruiting people with selected citizenships for the health interview survey GEDA Fokus throughout Germany: evaluation of recruitment efforts and recommendations for future research
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Carmen Koschollek, Beate Gaertner, Julia Geerlings, Ronny Kuhnert, Elvira Mauz, and Claudia Hövener
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Migration ,Survey research methods ,Hard to survey ,Mixed-mode ,Multilingual ,Sequential design ,Medicine (General) ,R5-920 - Abstract
Abstract Background Germany is the second most common country of immigration after the US. However, people with own or familial history of migration are not represented proportionately to the population within public health monitoring and reporting. To bridge this data gap and enable differentiated analyses on migration and health, we conducted the health interview survey GEDA Fokus among adults with Croatian, Italian, Polish, Syrian, or Turkish citizenship living throughout Germany. The aim of this paper is to evaluate the effects of recruitment efforts regarding participation and sample composition. Methods Data collection for this cross-sectional and multilingual survey took place between 11/2021 and 5/2022 utilizing a sequential mixed-mode design, including self-administered web- and paper-based questionnaires as well as face-to-face and telephone interviews. The gross sample (n = 33436; age range 18–79 years) was randomly drawn from the residents’ registers in 120 primary sampling units based on citizenship. Outcome rates according to the American Association for Public Opinion Research, the sample composition throughout the multistage recruitment process, utilization of survey modes, and questionnaire languages are presented. Results Overall, 6038 persons participated, which corresponded to a response rate of 18.4% (range: 13.8% for Turkish citizenship to 23.9% for Syrian citizenship). Home visits accounted for the largest single increase in response. During recruitment, more female, older, as well as participants with lower levels of education and income took part in the survey. People with physical health problems and less favourable health behaviour more often took part in the survey at a later stage, while participants with symptoms of depression or anxiety more often participated early. Utilization of survey modes and questionnaire languages differed by sociodemographic and migration-related characteristics, e.g. participants aged 50 years and above more often used paper- than web-based questionnaires and those with a shorter duration of residence more often used a translated questionnaire. Conclusion Multiple contact attempts, including home visits and different survey languages, as well as offering different modes of survey administration, increased response rates and most likely reduced non-response bias. In order to adequately represent and include the diversifying population in public health monitoring, national public health institutes should tailor survey designs to meet the needs of different population groups considered hard to survey to enable their survey participation.
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- 2024
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20. The use of nonpharmacological interventions for chronic pain treatment in community-dwelling older adults with a certified need for care
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Daniela Koios, Ronny Kuhnert, Dagmar Dräger, Arlett Wenzel, Reinhold Kreutz, and Andrea Budnick
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Geriatrics ,RC952-954.6 - Abstract
Abstract Background Chronic pain is a major health issue and rapid population ageing exacerbates the burden to health systems in countries like Germany. Nonpharmacological interventions (NPIs) are essential in pain care and the prioritization of active NPIs is emphasized in guidelines. This paper examines the utilization of NPIs for chronic pain management in community-dwelling older adults with a certified need of care in Berlin, Germany. Methods Cross-sectional data was collected through standardized face-to-face surveys with older adults (≥65 years), using validated instruments (e.g., Brief Pain Inventory), and structured lists for NPI utilization. Categorization into active and passive NPIs was performed through a literature-based, iterative process by an interdisciplinary team. For not normally distributed data, non-parametric tests were used as appropriate. Logistic regression was conducted for multivariate analysis. Results In total, 250 participants were included in this analysis (aged 65-104, x̅ = 81.8, 68.8% female). Most (92%) use NPIs for chronic pain management: 85.6% use active NPIs, 50.4% active movement and only 5.6% use solely passive approaches. Most common NPIs are distraction, thermotherapy/compresses, and physiotherapy. The odds of utilizing physiotherapy are three times higher for those with high educational status when compared to those with low education while those with low educational status had higher odds of using thermotherapy/compresses. Conclusions In our sample, most community-dwelling older adults with a certified need of care use active NPIs for chronic pain management with about half using active movement approaches. Considering the high vulnerability of this population, physiotherapy (in the form of therapeutic exercise) is a particularly appropriate intervention, and it was the third most frequent NPI in our sample. However, there is a social gradient in the utilization of physiotherapy for chronic pain management which might be rooted in issues around awareness, appeal, and access to such measures. It is important to take socioeconomic differences into account when planning the care for older chronic pain patients but also when designing research or user-friendly guidelines for this target group. Trial registration Ethical approval from the Ethics Committee of Charité - Universitätsmedizin Berlin (EA1/368/14) and study registration with the Central Study Register (ZSR no. 20009093).
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- 2024
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21. Health of single mothers and fathers in Germany. Results of the GEDA studies 2019 – 2023
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Petra Rattay, Yasmin Öztürk, Raimund Geene, Stefanie Sperlich, Ronny Kuhnert, Hannelore Neuhauser, Ulfert Hapke, Anne Starker, and Claudia Hövener
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single parents ,single-parent family ,family type ,health ,health inequalities ,Medicine - Abstract
Background: The living situation of single parents is often characterised by sole responsibility for family and household, problems in reconciling work and family life, and a high risk of poverty. In a comparative perspective with parents in partner households, the health of single mothers and fathers was analysed, considering differences in their social status. Methods: The analyses are based on data from the GEDA studies 2019 – 2023 (7,999 women, 6,402 men). Prevalences for single mothers and fathers and mothers and fathers living in partner households were calculated for self-rated health, chronic diseases, depressive symptoms, smoking and utilisation of professional help for mental health problems. In multivariate models, adjustments were made for income, education, employment status and social support, and interactions with family type were included. Results: Single mothers and fathers show higher prevalences for all health indicators in comparison to parents living in partner households. Also after adjustment, the differences between family types remain significant. The health of single mothers also varies partially with income, employment status and social support. Conclusions: Health promotion measures have to consider that single parents are a heterogeneous group. In addition to strengthening personal skills, policy and setting-based interventions aim to reduce health inequalities.
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- 2024
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22. Volume and Mass Conservation in Lagrangian Meshfree Methods
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Suchde, Pratik, Leithäuser, Christian, Kuhnert, Jörg, and Bordas, Stéphane P. A.
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Physics - Fluid Dynamics ,Mathematics - Numerical Analysis - Abstract
Meshfree Lagrangian frameworks for free surface flow simulations do not conserve fluid volume. Meshfree particle methods like SPH are not mimetic, in the sense that discrete mass conservation does not imply discrete volume conservation. On the other hand, meshfree collocation methods typically do not use any notion of mass. As a result, they are neither mass conservative nor volume conservative at the discrete level. In this paper, we give an overview of various sources of conservation errors across different meshfree methods. The present work focuses on one specific issue: unreliable volume and mass definitions. We introduce the concept of representative masses and densities, which are essential for accurate post-processing especially in meshfree collocation methods. Using these, we introduce an artificial compression or expansion in the fluid to rectify errors in volume conservation. Numerical experiments show that the introduced frameworks significantly improve volume conservation behaviour, even for complex industrial test cases such as automotive water crossing.
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- 2023
23. Fluoride emission rate analysis in proton exchange membrane water electrolyzer cells
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Eveline Kuhnert, Mathias Heidinger, Anna Bernroitner, Özge Kiziltan, Erwin Berger, Viktor Hacker, and Merit Bodner
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PEM water electrolysis ,hydrogen production ,green hydrogen ,fluoride emission rate ,degradation analysis ,General Works - Abstract
The assessment of PEM water electrolyzer (PEMWE) degradation is essential for understanding their long-term durability and performance under real-world conditions. This research focuses on the fluoride emission rate (FER) as a crucial parameter during PEMWE operation. Two different FER analysis methods were evaluated, considering their feasibility and ease of integration into a PEMWE system. Various stressors were examined to gain insights into membrane degradation and explore potential mitigation strategies. The utilization of a photometric detection method allowed for the quantification of FER in each test. Results highlight a noteworthy correlation between applied stressors and FER, with variations depending on specific test conditions. An accelerated stress test conducted for 100 hours revealed a high FER at the anode of 0.83 μg h−1 cm−2 during the initial phase. Correspondingly, energy dispersive X-ray (EDX) mapping showed a reduction in Nafion™ content on the catalyst-coated membrane (CCM) surfaces, likely impacting proton conductivity and performance. Electrochemical results further support these findings, indicating performance changes corresponding to the observed membrane degradation.
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- 2024
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24. Bayesian Physics Informed Neural Networks for Data Assimilation and Spatio-Temporal Modelling of Wildfires
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Dabrowski, Joel Janek, Pagendam, Daniel Edward, Hilton, James, Sanderson, Conrad, MacKinlay, Daniel, Huston, Carolyn, Bolt, Andrew, and Kuhnert, Petra
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Computer Science - Machine Learning - Abstract
We apply the Physics Informed Neural Network (PINN) to the problem of wildfire fire-front modelling. We use the PINN to solve the level-set equation, which is a partial differential equation that models a fire-front through the zero-level-set of a level-set function. The result is a PINN that simulates a fire-front as it propagates through the spatio-temporal domain. We show that popular optimisation cost functions used in the literature can result in PINNs that fail to maintain temporal continuity in modelled fire-fronts when there are extreme changes in exogenous forcing variables such as wind direction. We thus propose novel additions to the optimisation cost function that improves temporal continuity under these extreme changes. Furthermore, we develop an approach to perform data assimilation within the PINN such that the PINN predictions are drawn towards observations of the fire-front. Finally, we incorporate our novel approaches into a Bayesian PINN (B-PINN) to provide uncertainty quantification in the fire-front predictions. This is significant as the standard solver, the level-set method, does not naturally offer the capability for data assimilation and uncertainty quantification. Our results show that, with our novel approaches, the B-PINN can produce accurate predictions with high quality uncertainty quantification on real-world data., Comment: Accepted for publication in Spatial Statistics
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- 2022
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25. Follow-up of the GHSG HD16 trial of PET-guided treatment in early-stage favorable Hodgkin lymphoma
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Fuchs, Michael, Jacob, Anne Sophie, Kaul, Helen, Kobe, Carsten, Kuhnert, Georg, Pabst, Thomas, Greil, Richard, Bröckelmann, Paul J., Topp, Max S., Just, Marianne, Hertenstein, Bernd, Soekler, Martin, Vogelhuber, Martin, Zijlstra, Josée M., Keller, Ulrich Bernd, Krause, Stefan W., Dührsen, Ulrich, Meissner, Julia, Viardot, Andreas, Eich, Hans-Theodor, Baues, Christian, Diehl, Volker, Rosenwald, Andreas, Buehnen, Ina, von Tresckow, Bastian, Dietlein, Markus, Borchmann, Peter, Engert, Andreas, and Eichenauer, Dennis A.
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- 2024
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26. Enhanced reversal of ABCG2‐mediated drug resistance by replacing a phenyl ring in baicalein with a meta‐carborane
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Lydia Kuhnert, Robert Kuhnert, Menyhárt B. Sárosi, Cathleen Lakoma, Birte K. Scholz, Peter Lönnecke, Evamarie Hey‐Hawkins, and Walther Honscha
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ABCG2 ,baicalein ,breast cancer resistance protein/BCRP ,carborane ,drug resistance ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Success of chemotherapy is often hampered by multidrug resistance. One mechanism for drug resistance is the elimination of anticancer drugs through drug transporters, such as breast cancer resistance protein (BCRP; also known as ABCG2), and causes a poor 5‐year survival rate of human patients. Co‐treatment of chemotherapeutics and natural compounds, such as baicalein, is used to prevent chemotherapeutic resistance but is limited by rapid metabolism. Boron‐based clusters as meta‐carborane are very promising phenyl mimetics to increase target affinity; we therefore investigated the replacement of a phenyl ring in baicalein by a meta‐carborane to improve its affinity towards the human ABCG2 efflux transporter. Baicalein strongly inhibited the ABCG2‐mediated efflux and caused a fivefold increase in mitoxantrone cytotoxicity. Whereas the baicalein derivative 5,6,7‐trimethoxyflavone inhibited ABCG2 efflux activity in a concentration of 5 μm without reversing mitoxantrone resistance, its carborane analogue 5,6,7‐trimethoxyborcalein significantly enhanced the inhibitory effects in nanomolar ranges (0.1 μm) and caused a stronger increase in mitoxantrone toxicity reaching similar values as Ko143, a potent ABCG2 inhibitor. Overall, in silico docking and in vitro studies demonstrated that the modification of baicalein with meta‐carborane and three methoxy substituents leads to an enhanced reversal of ABCG2‐mediated drug resistance. Thus, this seems to be a promising basis for the development of efficient ABCG2 inhibitors.
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- 2024
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27. Potential COVID-19 test fraud detection: Findings from a pilot study comparing conventional and statistical approaches
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Michael Bosnjak, Stefan Dahm, Ronny Kuhnert, Dennis Weihrauch, Angelika Schaffrath Rosario, Julia Hurraß, Patrick Schmich, and Lothar H. Wieler
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covid-19 test billing ,healthcare billing fraud ,statistical fraud detection ,Medicine - Abstract
Background: Some COVID-19 testing centres have reported manipulated test numbers for antigen tests/rapid tests. This study compares statistical approaches with traditional fraud detection methods. The extent of agreement between traditional and statistical methods was analysed, as well as the extent to which statistical approaches can identify additional cases of potential fraud. Methods: Outlier detection marking a high number of tests, modeling of the positivity rate (Poisson Regression), deviation from distributional assumptions regarding the first digit (Benford’s Law) and the last digit of the number of reported tests. The basis of the analyses were billing data (April 2021 to August 2022) from 907 testing centres in a German city. Results: The positive agreement between the conventional and statistical approaches (‘sensitivity’) was between 8.6% and 24.7%, the negative agreement (‘specificity’) was between 91.3% and 94.6%. The proportion of potentially fraudulent testing centres additionally identified by statistical approaches was between 7.0% and 8.7%. The combination of at least two statistical methods resulted in an optimal detection rate of test centres with previously undetected initial suspicion. Conclusions: The statistical approaches were more effective and systematic in identifying potentially fraudulent testing centres than the conventional methods. Testing centres should be urged to map paradata (e.g. timestamps of testing) in future pandemics.
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- 2024
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28. Functional surface expression of immunoglobulin cleavage systems in a candidate Mycoplasma vaccine chassis
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Sergi Torres-Puig, Silvia Crespo-Pomar, Hatice Akarsu, Thatcha Yimthin, Valentina Cippà, Thomas Démoulins, Horst Posthaus, Nicolas Ruggli, Peter Kuhnert, Fabien Labroussaa, and Jörg Jores
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Biology (General) ,QH301-705.5 - Abstract
Abstract The Mycoplasma Immunoglobulin Binding/Protease (MIB-MIP) system is a candidate ‘virulence factor present in multiple pathogenic species of the Mollicutes, including the fast-growing species Mycoplasma feriruminatoris. The MIB-MIP system cleaves the heavy chain of host immunoglobulins, hence affecting antigen-antibody interactions and potentially facilitating immune evasion. In this work, using -omics technologies and 5’RACE, we show that the four copies of the M. feriruminatoris MIB-MIP system have different expression levels and are transcribed as operons controlled by four different promoters. Individual MIB-MIP gene pairs of M. feriruminatoris and other Mollicutes were introduced in an engineered M. feriruminatoris strain devoid of MIB-MIP genes and were tested for their functionality using newly developed oriC-based plasmids. The two proteins are functionally expressed at the surface of M. feriruminatoris, which confirms the possibility to display large membrane-associated proteins in this bacterium. However, functional expression of heterologous MIB-MIP systems introduced in this engineered strain from phylogenetically distant porcine Mollicutes like Mesomycoplasma hyorhinis or Mesomycoplasma hyopneumoniae could not be achieved. Finally, since M. feriruminatoris is a candidate for biomedical applications such as drug delivery, we confirmed its safety in vivo in domestic goats, which are the closest livestock relatives to its native host the Alpine ibex.
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- 2024
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29. Toxoplasma gondii Infections and Associated Factors in Female Children and Adolescents, Germany
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Laura Giese, Frank Seeber, Anton Aebischer, Ronny Kuhnert, Martin Schlaud, Klaus Stark, and Hendrik Wilking
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Toxoplasma gondii ,toxoplasmosis ,seroprevalence ,seroepidemiologic studies ,parasitic diseases ,congenital toxoplasmosis ,Medicine ,Infectious and parasitic diseases ,RC109-216 - Abstract
In a representative sample of female children and adolescents in Germany, Toxoplasma gondii seroprevalence was 6.3% (95% CI 4.7%–8.0%). With each year of life, the chance of being seropositive increased by 1.2, indicating a strong force of infection. Social status and municipality size were found to be associated with seropositivity.
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- 2024
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30. Application of a shunt damping circuit in a structure with an electromagnetically coupled beam: free vibration and frequency response
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Minnemann Kuhnert, Willian, Silva, Tarcísio M. P., De Marqui Junior, Carlos, Cammarano, Andrea, and Paupitz Gonçalves, Paulo J.
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- 2024
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31. Do acute mountain sickness and psychiatric disorders show overlapping symptoms?
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Florian Lukas Schipplick, Rajesh Sharma, Timo Schurr, Tanja Kuhnert, Sanjeeb Bhandari, Buddha Basnyat, Raimund Lechner, Michiel van Veelen, Marika Falla, Iztok Tomazin, Ken Zafren, Giacomo Strapazzon, Barbara Sperner-Unterweger, Hermann Brugger, and Katharina Hüfner
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acute mountain sickness ,Lake Louise Score ,psychiatric disorder ,mental state ,Sports ,GV557-1198.995 ,Sports medicine ,RC1200-1245 - Abstract
The Lake Louise Score (LLS) is a common tool for diagnosing acute mountain sickness (AMS) after a recent gain in altitude. Required symptoms (headache, dizziness, fatigue or gastrointestinal symptoms) are unspecific, subjective and not detectable by physiological parameters. (Talks et al., 2022; Boos et al., 2018) This study aimed to enhance present knowledge concerning the impact of mental health on LLS. In a cross-sectional questionnaire study, we assessed 3 groups: 100 inpatients (Ward for psychosomatic medicine – Innsbruck, PSY), 73 mentally healthy individuals (Innsbruck, Austria at an altitude of 570 m, CO) and 223 mountaineers in Nepal (Pheriche 4,371 m and Dingboche 4,410 m, NEPAL). Beside social demographics and LLS 2018 (cutoff for LLS-positivity: LLS ≥ 3 including at least 1 point for headache), we examined symptoms of anxiety (Zung Self-Rating Anxiety Scale [SAS], General Anxiety Disorder Questionnaire 7 [GAD-7]), affective states (International Positive and Negative Affect Schedule Short form [I-PANAS-SF]) and sleep (Insomnia Severity Index [ISI]). In this preliminary analysis, the average age was 39 ± 16 years in PSY, 34 ± 16 years in CO and 40 ± 14 years in NEPAL. Gender distribution showed greater portion of women in PSY and CO (PSY: 72% female 24% male 3% non-binary, CO: 64% female 36% male) contrary to NEPAL (36% female 64% male). At sea level, 67% scored LLS-positive in PSY and 12% in CO (Fishers exact test, p < 0.001). In NEPAL 25% met AMS-criteria by LLS. CO and NEPAL score significantly lower in LLS than PSY (ANOVA: diff = -3.70, p < 0.0001; diff = -3.68, p < 0.0001, respectively). PSY and CO showed significant weak to moderate correlations (Spearman-Rho, p < 0.001) of anxiety (SAS, GAD), affective states (I-PANAS-SF) and sleep impairment (ISI) with LLS-sum. NEPAL showed significant very-weak to weak correlations of insomnia, anxiety and negative affect with LLS-sum. Using logistic regression analysis (Figure 1), higher odds of LLS-positivity are significantly associated with insomnia and anxiety (ISI, SAS) in PSY, with anxiety in CO (SAS) and insomnia and negative affect in NEPAL. While of course a recent gain in altitude is a prerequisite for the diagnosis of AMS this study shows that patients with pre-existing mental illness at low altitude score more frequently false-positive on the LLS than a mentally healthy cohort. Symptoms of anxiety, negative affect and sleep disturbance can affect the AMS-defining questionnaire of LLS both at sea level and at high altitude. There is still uncertainty on a possible common pathophysiological pathway of psychiatric diseases and AMS since there is no Gold Standard in diagnosing AMS. Concerning (well-)established risk-factors for AMS like speed of ascent (Berger et al., 2023) and female sex (Hou et al., 2019), we see no evident data. The data presented here suggest that strength of expression of negative affect can cause positive LLS scoring. Acute mountain sickness and psychiatric disorders show overlapping symptoms at sea level. At high altitudes, negative affect seems to be a possible cause for the development of AMS. Further research focus should be placed on mountaineers in high altitude with psychiatric disorders and their mental state. References Berger, M. M., Hüsing, A., Niessen, N., Schiefer, L. M., Schneider, M., Bärtsch, P., & Jöckel, K. H. (2023). Prevalence and knowledge about acute mountain sickness in the Western Alps. PLoS ONE, 18(9), Article e0291060. https://doi.org/10.1371/journal.pone.0291060 Boos, C. J., Bass, M., O’Hara, J. P., Vincent, E., Mellor, A., Sevier, L., Abdul-Razakq, H., Cooke, M., Barlow, M., & Woods, D. R. (2018). The relationship between anxiety and acute mountain sickness. PLoS ONE, 13(6), Article e0197147. https://doi.org/10.1371/journal.pone.0197147 Hou, Y. P., Wu, J. L., Tan, C., Chen, Y., Guo, R., & Luo, Y. J. (2019). Sex-based differences in the prevalence of acute mountain sickness: A meta-analysis. Military Medical Research, 6, Article 38. https://doi.org/10.1186/s40779-019-0228-3 Talks, B. J., Campbell, C., Larcombe, S. J., Marlow, L., Finnegan, S. L., Lewis, C. T., Lucas, S. J. E., Harrison, O. K., & Pattinson, K. T. S. (2022). Baseline psychological traits contribute to Lake Louise Acute Mountain Sickness score at high altitude. High Altitude Medicine & Biology, 23(1), 69–77. https://doi.org/10.1089/ham.2021.0073
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- 2024
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32. A Spatio-Temporal Neural Network Forecasting Approach for Emulation of Firefront Models
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Bolt, Andrew, Huston, Carolyn, Kuhnert, Petra, Dabrowski, Joel Janek, Hilton, James, and Sanderson, Conrad
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Computer Science - Machine Learning - Abstract
Computational simulations of wildfire spread typically employ empirical rate-of-spread calculations under various conditions (such as terrain, fuel type, weather). Small perturbations in conditions can often lead to significant changes in fire spread (such as speed and direction), necessitating a computationally expensive large set of simulations to quantify uncertainty. Model emulation seeks alternative representations of physical models using machine learning, aiming to provide more efficient and/or simplified surrogate models. We propose a dedicated spatio-temporal neural network based framework for model emulation, able to capture the complex behaviour of fire spread models. The proposed approach can approximate forecasts at fine spatial and temporal resolutions that are often challenging for neural network based approaches. Furthermore, the proposed approach is robust even with small training sets, due to novel data augmentation methods. Empirical experiments show good agreement between simulated and emulated firefronts, with an average Jaccard score of 0.76.
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- 2022
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33. Towards Data Assimilation in Level-Set Wildfire Models Using Bayesian Filtering
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Dabrowski, Joel Janek, Huston, Carolyn, Hilton, James, Mangeon, Stephane, and Kuhnert, Petra
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Statistics - Applications - Abstract
The level-set method is a prominent approach to modelling the evolution of a fire over time based on a characterised rate of spread. It however does not provide a direct means for assimilating new data and quantifying uncertainty. Fire front predictions can be more accurate and agile if the models are able to assimilate data in real time. Furthermore, uncertainty estimation of the location and spread of the fire is critical for decision making. Using Bayesian filtering approaches, we extend the level-set method to allow for data assimilation and uncertainty quantification. We demonstrate these approaches on data from a controlled fire.
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- 2022
34. Smallset Timelines: A Visual Representation of Data Preprocessing Decisions
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Lucchesi, Lydia R., Kuhnert, Petra M., Davis, Jenny L., and Xie, Lexing
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Computer Science - Human-Computer Interaction - Abstract
Data preprocessing is a crucial stage in the data analysis pipeline, with both technical and social aspects to consider. Yet, the attention it receives is often lacking in research practice and dissemination. We present the Smallset Timeline, a visualisation to help reflect on and communicate data preprocessing decisions. A "Smallset" is a small selection of rows from the original dataset containing instances of dataset alterations. The Timeline is comprised of Smallset snapshots representing different points in the preprocessing stage and captions to describe the alterations visualised at each point. Edits, additions, and deletions to the dataset are highlighted with colour. We develop the R software package, smallsets, that can create Smallset Timelines from R and Python data preprocessing scripts. Constructing the figure asks practitioners to reflect on and revise decisions as necessary, while sharing it aims to make the process accessible to a diverse range of audiences. We present two case studies to illustrate use of the Smallset Timeline for visualising preprocessing decisions. Case studies include software defect data and income survey benchmark data, in which preprocessing affects levels of data loss and group fairness in prediction tasks, respectively. We envision Smallset Timelines as a go-to data provenance tool, enabling better documentation and communication of preprocessing tasks at large., Comment: In 2022 ACM Conference on Fairness, Accountability, and Transparency (FAccT '22), June 21-24, 2022, Seoul, Republic of Korea
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- 2022
35. A Discrete Droplet Method for Modelling Thin Film Flows
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Bharadwaj, Anand S, Kuhnert, Joerg, Bordas, Stephane P. A., and Suchde, Pratik
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Physics - Fluid Dynamics - Abstract
In this paper, we present a new model to simulate the formation, evolution, and break up of a thin film of fluid flowing over a curved surface. Referred to as the discrete droplet method (DDM), the model captures the evolution of thin fluid films by tracking individual moving fluid droplets. In contrast to existing thin film models that solve a PDE to determine the film height, here, we compute the film height by numerical integration based on the aggregation of droplets. The novelty of this approach in using droplets makes it suitable for simulating the formation of fluid films, and modelling thin film flows on partially wetted surfaces. The DDM is a Lagrangian approach, with a force balance on each droplet governing the motion, and derivatives approximated using a smoothed particle hydrodynamics (SPH) like approach. The proposed model is thoroughly validated by comparing results against analytical solutions, against the results of the shallow-water equations for thin film flow, and also against results from a full 3D resolved Navier Stokes model. We also present the use of the DDM on an industrial test case. The results highlight the effectiveness of the model for simulations of flows with thin films.
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- 2022
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36. A Meshfree Point Collocation Method for Elliptic Interface Problems
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Kraus, Heinrich, Kuhnert, Jörg, Meister, Andreas, and Suchde, Pratik
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Mathematics - Numerical Analysis - Abstract
We present a meshfree generalized finite difference method for solving Poisson's equation with a diffusion coefficient that contains jump discontinuities up to several orders of magnitude. To discretize the diffusion operator, we formulate a strong form method that uses a smearing of the discontinuity; and a conservative formulation based on locally computed Voronoi cells. Additionally, we propose a novel conservative formulation for enforcing Neumann boundary conditions that is compatible with the conservative formulation of the diffusion operator. Finally, we introduce a way to switch from the strong form to the conservative formulation to obtain a locally conservative and positivity preserving scheme. The presented numerical methods are benchmarked against four test cases of varying complexity and jump magnitude on point clouds with nodes that are not aligned to the discontinuity. Our results show that the new hybrid method that switches between the two formulations produces better results than the classical generalized finite difference approach for high jumps in diffusivity.
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- 2022
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37. Morphometry of the superior ophthalmic vein unaffected by dilating factors
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Farida Mehrhoff, Melissa S Zolnierz, Alla G Barry, Shelby K Kuhnert, Mary K Kilmer, Dmitry E Tsyplakov, and Robert Hillard
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carotid-cavernous sinus fistula ,superior ophthalmic vein ,superior ophthalmic vein diameter ,superior ophthalmic vein dilation ,superior ophthalmic vein tunics ,Ophthalmology ,RE1-994 - Abstract
Context: Data on the superior ophthalmic vein (SOV) dilation captivate the attention of neurologists as an early sign of several neurovascular disease manifestations, but measurements vary widely in publications. Aims: This study attempts to shed light on disparate data and develop more stringent criteria for determining the dilation of these veins. Settings and Design: To this end, 44 orbits of 25 formalin-embalmed human cadavers without risk factors for SOV dilation were dissected. Materials and Methods: The SOV branching pattern and length were photographed, and multiple segments were analyzed microscopically, histologically, and statistically. Statistical Analysis Used: Simple descriptive statistics as well as linear regression were used to compare the data. Results: The mean SOV diameter was 2.05 ± 0.7 mm. Other morphometric findings included the presence of valves and an unreported branching pattern of the SOV. Conclusion: Knowledge of the mean diameter serves as a diagnostic reference to help recognize SOV dilation, while the unreported variation of SOV (trifurcation at the exit point) may have implications in neurosurgery when using this vein to approach the cavernous sinus.
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- 2024
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38. An Emulation Framework for Fire Front Spread
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Bolt, Andrew, Dabrowski, Joel Janek, Huston, Carolyn, and Kuhnert, Petra
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Computer Science - Machine Learning - Abstract
Forecasting bushfire spread is an important element in fire prevention and response efforts. Empirical observations of bushfire spread can be used to estimate fire response under certain conditions. These observations form rate-of-spread models, which can be used to generate simulations. We use machine learning to drive the emulation approach for bushfires and show that emulation has the capacity to closely reproduce simulated fire-front data. We present a preliminary emulator approach with the capacity for fast emulation of complex simulations. Large numbers of predictions can then be generated as part of ensemble estimation techniques, which provide more robust and reliable forecasts of stochastic systems., Comment: Machine Learning and the Physical Sciences Workshop, NeurIPS, 2021
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- 2022
39. Meshfree One-Fluid Modelling of Liquid-Vapor Phase Transitions
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Suchde, Pratik, Kraus, Heinrich, Bock-Marbach, Benjamin, and Kuhnert, Joerg
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Physics - Fluid Dynamics ,Mathematics - Numerical Analysis - Abstract
We introduce a meshfree collocation framework to model the phase change from liquid to vapor at or above the boiling point. While typical vaporization or boiling simulations focus on the vaporization from the bulk of the fluid, here we include the possibility of vaporization from the free surface, when a moving fluid comes into contact with a superheated surface. We present a continuum, one-fluid approach in which the liquid and vapor phases are modeled with the same constitutive equations, with different material properties. The novelty here is a monolithic approach without explicit modeling of the interface between the phases, neither in a sharp nor diffuse sense. Furthermore, no interface boundary conditions or source terms are needed between the liquid and vapor phases. Instead, the phase transition is modeled only using material properties varying with temperature. Towards this end, we also present an enrichment of strong form meshfree generalized finite difference methods (GFDM) to accurately capture derivatives in the presence of jumps in density, viscosity, and other physical properties. The numerical results show a good agreement with experimental results, and highlight the ability of our proposed framework to model phase changes with large jumps.
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- 2022
40. Modeling evaporation with a meshfree collocation approach
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Lee, JungHoon, Bäder, Dirk, Rehfeldt, Sebastian, Eisenträger, Almut, Kuhnert, Jörg, Michel, Isabel, Suchde, Pratik, and Klein, Harald
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- 2023
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41. Embedding AI-Enabled Data Infrastructures for Sustainability in Agri-Food: Soft-Fruit and Brewery Use Case Perspectives
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Milan Markovic, Andy Li, Tewodros Alemu Ayall, Nicholas J. Watson, Alexander L. Bowler, Mel Woods, Peter Edwards, Rachael Ramsey, Matthew Beddows, Matthias Kuhnert, and Georgios Leontidis
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artificial intelligence ,Internet of Things ,net zero ,agri-food ,Chemical technology ,TP1-1185 - Abstract
The agri-food sector is undergoing a comprehensive transformation as it transitions towards net zero. To achieve this, fundamental changes and innovations are required, including changes in how food is produced and delivered to customers, new technologies, data and physical infrastructures, and algorithmic advancements. In this paper, we explore the opportunities and challenges of deploying AI-based data infrastructures for sustainability in the agri-food sector by focusing on two case studies: soft-fruit production and brewery operations. We investigate the potential benefits of incorporating Internet of Things (IoT) sensors and AI technologies for improving the use of resources, reducing carbon footprints, and enhancing decision-making. We identify user engagement with new technologies as a key challenge, together with issues in data quality arising from environmental volatility, difficulties in generalising models, including those designed for carbon calculators, and socio-technical barriers to adoption. We highlight and advocate for user engagement, more granular availability of sensor, production, and emissions data, and more transparent carbon footprint calculations. Our proposed future directions include semantic data integration to enhance interoperability, the generation of synthetic data to overcome the lack of real-world farm data, and multi-objective optimisation systems to model the competing interests between yield and sustainability goals. In general, we argue that AI is not a silver bullet for net zero challenges in the agri-food industry, but at the same time, AI solutions, when appropriately designed and deployed, can be a useful tool when operating in synergy with other approaches.
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- 2024
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42. The consolidated European synthesis of CO2 emissions and removals for the European Union and United Kingdom: 1990–2020
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M. J. McGrath, A. M. R. Petrescu, P. Peylin, R. M. Andrew, B. Matthews, F. Dentener, J. Balkovič, V. Bastrikov, M. Becker, G. Broquet, P. Ciais, A. Fortems-Cheiney, R. Ganzenmüller, G. Grassi, I. Harris, M. Jones, J. Knauer, M. Kuhnert, G. Monteil, S. Munassar, P. I. Palmer, G. P. Peters, C. Qiu, M.-J. Schelhaas, O. Tarasova, M. Vizzarri, K. Winkler, G. Balsamo, A. Berchet, P. Briggs, P. Brockmann, F. Chevallier, G. Conchedda, M. Crippa, S. N. C. Dellaert, H. A. C. Denier van der Gon, S. Filipek, P. Friedlingstein, R. Fuchs, M. Gauss, C. Gerbig, D. Guizzardi, D. Günther, R. A. Houghton, G. Janssens-Maenhout, R. Lauerwald, B. Lerink, I. T. Luijkx, G. Moulas, M. Muntean, G.-J. Nabuurs, A. Paquirissamy, L. Perugini, W. Peters, R. Pilli, J. Pongratz, P. Regnier, M. Scholze, Y. Serengil, P. Smith, E. Solazzo, R. L. Thompson, F. N. Tubiello, T. Vesala, and S. Walther
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Environmental sciences ,GE1-350 ,Geology ,QE1-996.5 - Abstract
Quantification of land surface–atmosphere fluxes of carbon dioxide (CO2) and their trends and uncertainties is essential for monitoring progress of the EU27+UK bloc as it strives to meet ambitious targets determined by both international agreements and internal regulation. This study provides a consolidated synthesis of fossil sources (CO2 fossil) and natural (including formally managed ecosystems) sources and sinks over land (CO2 land) using bottom-up (BU) and top-down (TD) approaches for the European Union and United Kingdom (EU27+UK), updating earlier syntheses (Petrescu et al., 2020, 2021). Given the wide scope of the work and the variety of approaches involved, this study aims to answer essential questions identified in the previous syntheses and understand the differences between datasets, particularly for poorly characterized fluxes from managed and unmanaged ecosystems. The work integrates updated emission inventory data, process-based model results, data-driven categorical model results, and inverse modeling estimates, extending the previous period 1990–2018 to the year 2020 to the extent possible. BU and TD products are compared with the European national greenhouse gas inventory (NGHGI) reported by parties including the year 2019 under the United Nations Framework Convention on Climate Change (UNFCCC). The uncertainties of the EU27+UK NGHGI were evaluated using the standard deviation reported by the EU member states following the guidelines of the Intergovernmental Panel on Climate Change (IPCC) and harmonized by gap-filling procedures. Variation in estimates produced with other methods, such as atmospheric inversion models (TD) or spatially disaggregated inventory datasets (BU), originate from within-model uncertainty related to parameterization as well as structural differences between models. By comparing the NGHGI with other approaches, key sources of differences between estimates arise primarily in activities. System boundaries and emission categories create differences in CO2 fossil datasets, while different land use definitions for reporting emissions from land use, land use change, and forestry (LULUCF) activities result in differences for CO2 land. The latter has important consequences for atmospheric inversions, leading to inversions reporting stronger sinks in vegetation and soils than are reported by the NGHGI. For CO2 fossil emissions, after harmonizing estimates based on common activities and selecting the most recent year available for all datasets, the UNFCCC NGHGI for the EU27+UK accounts for 926 ± 13 Tg C yr−1, while eight other BU sources report a mean value of 948 [937,961] Tg C yr−1 (25th, 75th percentiles). The sole top-down inversion of fossil emissions currently available accounts for 875 Tg C in this same year, a value outside the uncertainty of both the NGHGI and bottom-up ensemble estimates and for which uncertainty estimates are not currently available. For the net CO2 land fluxes, during the most recent 5-year period including the NGHGI estimates, the NGHGI accounted for −91 ± 32 Tg C yr−1, while six other BU approaches reported a mean sink of −62 [-117,-49] Tg C yr−1, and a 15-member ensemble of dynamic global vegetation models (DGVMs) reported −69 [-152,-5] Tg C yr−1. The 5-year mean of three TD regional ensembles combined with one non-ensemble inversion of −73 Tg C yr−1 has a slightly smaller spread (0th–100th percentiles of [-135,+45] Tg C yr−1), and it was calculated after removing net land–atmosphere CO2 fluxes caused by lateral transport of carbon (crop trade, wood trade, river transport, and net uptake from inland water bodies), resulting in increased agreement with the NGHGI and bottom-up approaches. Results at the category level (Forest Land, Cropland, Grassland) generally show good agreement between the NGHGI and category-specific models, but results for DGVMs are mixed. Overall, for both CO2 fossil and net CO2 land fluxes, we find that current independent approaches are consistent with the NGHGI at the scale of the EU27+UK. We conclude that CO2 emissions from fossil sources have decreased over the past 30 years in the EU27+UK, while land fluxes are relatively stable: positive or negative trends larger (smaller) than 0.07 (−0.61) Tg C yr−2 can be ruled out for the NGHGI. In addition, a gap on the order of 1000 Tg C yr−1 between CO2 fossil emissions and net CO2 uptake by the land exists regardless of the type of approach (NGHGI, TD, BU), falling well outside all available estimates of uncertainties. However, uncertainties in top-down approaches to estimate CO2 fossil emissions remain uncharacterized and are likely substantial, in addition to known uncertainties in top-down estimates of the land fluxes. The data used to plot the figures are available at https://doi.org/10.5281/zenodo.8148461 (McGrath et al., 2023).
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- 2023
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43. Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation
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Hagestad, Ole Christian, Hou, Lingwei, Andersen, Jeanette H, Hansen, Espen H, Altermark, Bjørn, Li, Chun, Kuhnert, Eric, Cox, Russell J, Crous, Pedro W, Spatafora, Joseph W, Lail, Kathleen, Amirebrahimi, Mojgan, Lipzen, Anna, Pangilinan, Jasmyn, Andreopoulos, William, Hayes, Richard D, Ng, Vivian, Grigoriev, Igor V, Jackson, Stephen A, Sutton, Thomas DS, Dobson, Alan DW, and Rämä, Teppo
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Biological Sciences ,Ecology ,Evolutionary Biology ,Genetics ,Microbiology ,Biotechnology ,Human Genome ,Life Below Water ,Bioprospecting ,Genome mining ,Illumina ,Lignocellulolytic enzymes ,Physiology ,Taxonomy ,new taxon ,Plant biology - Abstract
Marine fungi remain poorly covered in global genome sequencing campaigns; the 1000 fungal genomes (1KFG) project attempts to shed light on the diversity, ecology and potential industrial use of overlooked and poorly resolved fungal taxa. This study characterizes the genomes of three marine fungi: Emericellopsis sp. TS7, wood-associated Amylocarpus encephaloides and algae-associated Calycina marina. These species were genome sequenced to study their genomic features, biosynthetic potential and phylogenetic placement using multilocus data. Amylocarpus encephaloides and C. marina were placed in the Helotiaceae and Pezizellaceae (Helotiales), respectively, based on a 15-gene phylogenetic analysis. These two genomes had fewer biosynthetic gene clusters (BGCs) and carbohydrate active enzymes (CAZymes) than Emericellopsis sp. TS7 isolate. Emericellopsis sp. TS7 (Hypocreales, Ascomycota) was isolated from the sponge Stelletta normani. A six-gene phylogenetic analysis placed the isolate in the marine Emericellopsis clade and morphological examination confirmed that the isolate represents a new species, which is described here as E. atlantica. Analysis of its CAZyme repertoire and a culturing experiment on three marine and one terrestrial substrates indicated that E. atlantica is a psychrotrophic generalist fungus that is able to degrade several types of marine biomass. FungiSMASH analysis revealed the presence of 35 BGCs including, eight non-ribosomal peptide synthases (NRPSs), six NRPS-like, six polyketide synthases, nine terpenes and six hybrid, mixed or other clusters. Of these BGCs, only five were homologous with characterized BGCs. The presence of unknown BGCs sets and large CAZyme repertoire set stage for further investigations of E. atlantica. The Pezizellaceae genome and the genome of the monotypic Amylocarpus genus represent the first published genomes of filamentous fungi that are restricted in their occurrence to the marine habitat and form thus a valuable resource for the community that can be used in studying ecological adaptions of fungi using comparative genomics.
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- 2021
44. 61. Acellular Dermal Matrix Modulates Monocyte Transcriptome In Mice And Humans To Attenuate Foreign Body Response
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Michelle Griffin, MSc MRes MD PhD, Ruth Tevlin, MB BAO BCh MRCS MD, Jennifer Parker, BSc, Norah Liang, MD, Jason Guo, PhD, Caleb Valencia, BSc, Annah Morgan, BSc, Max Kuhnert, MD, Arash Momeni, MD FACS, Derrick Wan, MD, and Michael T. Longaker, MD MBA
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Surgery ,RD1-811 - Published
- 2024
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45. Study on Health of Older People in Germany (Gesundheit 65+): objectives, design and implementation
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Judith Fuchs, Beate Gaertner, Hanna Perlitz, Tim Kuttig, Annett Klingner, Jens Baumert, Antje Hüther, Ronny Kuhnert, Julia Wolff, Christa Scheidt-Nave, and the study group Gesundheit 65
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health ,old age ,longitudinal study ,population-based ,germany ,covid-19 ,health survey ,Medicine - Abstract
Background: The longitudinal population-based study Gesundheit 65+ aimed to close data gaps on health and well-being of older adults in Germany in times of the COVID-19 pandemic. Methods: The target population comprised persons 65 years and older permanently residing in Germany and with sufficient German language skills. Proxy interviews were possible and consent from legal representatives was obtained as necessary in order to enable participation of physically or cognitively impaired persons. A two-stage sampling process, was used to draw 128 primary sample points (PSUs) and within these PSUs sex- and age-stratified random samples were drawn from population registries. A mixed-mode design was applied to contact the study population and for data collection. Data were collected between June 2021 and April 2023. Participants were surveyed a total of four times at intervals of four months. At month 12 participants were offered a home visit including a non-invasive examination. Data on all-cause mortality and information on neighborhood social and built environment as well as health insurance data will be linked to primarily collected data at the individual level. Discussion: Results will inform health politicians and other stakeholders in the care system on health and health care needs of older people in Germany.
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- 2023
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46. Gender equality and smoking among 15 to 25 year olds—a time-based ecological analysis of developments in Germany from 1960 to 2005
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Jana Roczen, Gabriele Bolte, Birgit Reineke, Ronny Kuhnert, Anne Starker, and Emily Mena
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smoking ,smoking prevalence ,gender equality ,gender inequality ,young adults ,time-based ,Public aspects of medicine ,RA1-1270 - Abstract
IntroductionSmoking is a major risk factor for premature death and health problems in which there are significant gender differences in the prevalence of smoking. This ecological study examines the correlation between changes in gender equality and prevalence of smoking among young adults (15–25 years old) in Germany over a period of 45 years (1960–2005).MethodsGender inequality was measured using the United Nations Gender Inequality Index (GII), which is composed of three dimensions; health, empowerment and labour market. It was calculated for the entire registered German population in five-year intervals with values between 0 and 1 (1 = highest inequality). The smoking prevalence of young women and men in Germany was established using a reconstruction method. A gender smoking ratio (GSR) with values between 0 and 1 was determined (1 = identical smoking prevalence among men and women). The smoking behaviour was illustrated and stratified by education. The correlation between the GII and the GSR was analysed.ResultsThe GII decreased from 0.98 to 0.56 between 1960 and 2005. The GSR increased from 0.34 to 0.93. There was a strong negative correlation between the GII and the GSR (r = −0.71). The strength of the correlation fell slightly as the level of education decreased. An increase in gender equality as measured by the GII came along with similarities of smoking prevalence between young women and young men.ConclusionSuccessful tobacco prevention among young women and men may benefit from involving experts in gender-specific public health research to develop counter-advertising and gender-specific information as needed.
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- 2024
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47. Canine Staphylococcaceae circulating in a Kenyan animal shelter
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Hatice Akarsu, Anne M. Liljander, Anna Lacasta, Paul Ssajjakambwe, Isabelle Brodard, Jérémy D. R. Cherbuin, Sergi Torres-Puig, Vincent Perreten, Peter Kuhnert, Fabien Labroussaa, and Joerg Jores
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Staphylococcaceae ,Staphylococcus aureus ,Staphylococcus pseudintermedius ,Mammaliicoccus sciuri ,dog ,resistance ,Microbiology ,QR1-502 - Abstract
ABSTRACTAnimal shelters, especially in resource-poor countries, bring together pets from different regions and with different backgrounds. The crowding of such animals often results in infectious diseases, such as respiratory infections. This study characterized Staphylococcaceae from diseased and apparently healthy dogs housed in an animal shelter in Kenya, to determine their antibiotic resistance profiles, their genetic relatedness, and the presence of dominant clones. Therefore, bacteria were collected from all 167 dogs present in the shelter in June 2015 and screened for Staphylococcaceae using standard cultivation techniques. In all, 92 strains were isolated from 85 dogs and subsequently sequenced by PacBio long-read sequencing. Strains encompassed nine validated species, while S. aureus (n = 47), S. pseudintermedius (n = 21), and Mammaliicoccus (M.) sciuri (n = 16) were the three most dominant species. Two S. aureus clones of ST15 (CC15) and ST1292 (CC1) were isolated from 7 and 37 dogs, respectively. All 92 strains isolated were tested for their antimicrobial susceptibility by determining the minimum inhibitory concentrations. In all, 86 strains had resistance-associated minimal inhibitory concentrations to at least one of the following antimicrobials: tetracycline, benzylpenicillin, oxacillin, erythromycin, clindamycin, trimethoprim, kanamycin/gentamicin, or streptomycin. Many virulence-encoding genes were detected in the S. aureus strains, other Staphylococcaceae contained a different set of homologs of such genes. The presence of mobile genetic elements, such as plasmids and prophages, known to facilitate the dissemination of virulence- and resistance-encoding genes, was also assessed. The unsuspected high presence of two S. aureus clones in about 50% of dogs suggests dissemination within the shelter and a human source.IMPORTANCEMicrobiological data from sub-Saharan Africa are scarce compared to data from North America, Europe, or Asia, and data derived from dogs, the man’s best friend, kept in sub-Saharan Africa are largely missing. This work presents data on Staphylococcaceae mainly isolated from the nasal cavity of dogs stationed at a Kenyan shelter in 2015. We characterized 92 strains isolated from 85 dogs, diseased and apparently healthy ones. The strains isolated covered nine validated species and we determined their phenotypic resistance and characterized their complete genomes. Interestingly, Staphylococcus aureus of two predominant genetic lineages, likely to be acquired from humans, colonized many dogs. We also detected 15 novel sequence types of Mammaliicoccus sciuri and S. pseudintermedius indicating sub-Saharan-specific phylogenetic lineages. The data presented are baseline data that guide antimicrobial treatment for dogs in the region.
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- 2024
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48. Anti-inflammatory role of APRIL by modulating regulatory B cells in antigen-induced arthritis.
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Adriana Carvalho-Santos, Lia Rafaella Ballard Kuhnert, Michael Hahne, Rita Vasconcellos, Carla Eponina Carvalho-Pinto, and Déa Maria Serra Villa-Verde
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Medicine ,Science - Abstract
APRIL (A Proliferation-Inducing Ligand), a member of the TNF superfamily, was initially described for its ability to promote proliferation of tumor cells in vitro. Moreover, this cytokine has been related to the pathogenesis of different chronic inflammatory diseases, such as rheumatoid arthritis. This study aimed to evaluate the ability of APRIL in regulating B cell-mediated immune response in the antigen-induced arthritis (AIA) model in mice. AIA was induced in previously immunized APRIL-transgenic (Tg) mice and their littermates by administration of antigen (mBSA) into the knee joints. Different inflammatory cell populations in spleen and draining lymph nodes were analyzed using flow cytometry and the assay was performed in the acute and chronic phases of the disease, while cytokine levels were assessed by ELISA. In the acute AIA, APRIL-Tg mice developed a less severe condition and a smaller inflammatory infiltrate in articular tissues when compared with their littermates. We also observed that the total cellularity of draining lymph nodes was decreased in APRIL-Tg mice. Flow cytometry analysis revealed an increase of CD19+IgM+CD5+ cell population in draining lymph nodes and an increase of CD19+CD21hiCD23hi (B regulatory) cells in APRIL-Tg mice with arthritis as well as an increase of IL-10 and CXCL13 production in vitro.
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- 2024
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49. Serological and molecular detection as well as typing of Leptospira spp. in foxes, raccoons, and other wild carnivores in North-Eastern Germany, 2021–2022
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Peter Kuhnert, Isabelle Brodard, Stefanie Ackermann, Peter Schierack, and Joerg Jores
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Zoonosis ,One health ,MLST ,Wildlife ,Brucella ,Francisella tularensis ,Science (General) ,Q1-390 ,Social sciences (General) ,H1-99 - Abstract
Leptospirosis is a worldwide zoonosis caused by pathogenic Leptospira spp. While the latter are reported from various mammal hosts such as humans, dogs, or rodents, less is known about their presence in wild carnivores. We therefore investigated the presence of Leptospira spp. in foxes, raccoons, badgers, raccoon dogs, and martens in North-Eastern Germany. Kidney, urine, and blood specimens obtained from legally hunted or road-killed animals were tested by real-time PCR and by serogroup specific antibody detection for the presence of Leptospira spp. Additionally, kidney and urine specimens were tested by real-time PCR for the presence of Brucella spp. and Francisella tularensis, with all being negative for these two zoonotic pathogens. Leptospira spp. were detected by PCR in 12.6 % (n = 21/166) and serologically in 26.2 % (n = 53/202) of tissue and serum samples, respectively. Antibodies to 15 different serogroups were identified with Javanica (n = 25) and Bataviae (n = 12) being predominant. A high sero-prevalence of 34.0 % and 18.6 % in foxes and raccoons, respectively, and the presence of ST17 associated with human and animal leptospirosis indicates a reservoir and the zoonotic potential of these wild animals.
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- 2024
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50. Deep Inverse Sensor Models as Priors for evidential Occupancy Mapping
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Bauer, Daniel, Kuhnert, Lars, and Eckstein, Lutz
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Computer Science - Robotics ,Computer Science - Machine Learning - Abstract
With the recent boost in autonomous driving, increased attention has been paid on radars as an input for occupancy mapping. Besides their many benefits, the inference of occupied space based on radar detections is notoriously difficult because of the data sparsity and the environment dependent noise (e.g. multipath reflections). Recently, deep learning-based inverse sensor models, from here on called deep ISMs, have been shown to improve over their geometric counterparts in retrieving occupancy information. Nevertheless, these methods perform a data-driven interpolation which has to be verified later on in the presence of measurements. In this work, we describe a novel approach to integrate deep ISMs together with geometric ISMs into the evidential occupancy mapping framework. Our method leverages both the capabilities of the data-driven approach to initialize cells not yet observable for the geometric model effectively enhancing the perception field and convergence speed, while at the same time use the precision of the geometric ISM to converge to sharp boundaries. We further define a lower limit on the deep ISM estimate's certainty together with analytical proofs of convergence which we use to distinguish cells that are solely allocated by the deep ISM from cells already verified using the geometric approach.
- Published
- 2020
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