572 results on '"Zemp, P."'
Search Results
2. Composition and diversity of ground beetles within wooded pastures and alternative land-use systems in Swiss Jura mountains
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Zimmermann, Erwan Edgar, Chittaro, Yannick, Wider, Sandrine, and Zemp, Delphine Clara
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- 2024
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3. From Detection to Cure – Emerging Roles for Urinary Tumor DNA (utDNA) in Bladder Cancer
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Linscott, Joshua A., Miyagi, Hiroko, Murthy, Prithvi B., Yao, Sijie, Grass, G. Daniel, Vosoughi, Aram, Xu, Hongzhi, Wang, Xuefeng, Yu, Xiaoqing, Yu, Alice, Zemp, Logan, Gilbert, Scott M., Poch, Michael A., Sexton, Wade J., Spiess, Philippe E., and Li, Roger
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- 2024
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4. Spatiotemporal modeling reveals high-resolution invasion states in glioblastoma
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Varsha Thoppey Manoharan, Aly Abdelkareem, Gurveer Gill, Samuel Brown, Aaron Gillmor, Courtney Hall, Heewon Seo, Kiran Narta, Sean Grewal, Ngoc Ha Dang, Bo Young Ahn, Kata Osz, Xueqing Lun, Laura Mah, Franz Zemp, Douglas Mahoney, Donna L. Senger, Jennifer A. Chan, and A. Sorana Morrissy
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Biology (General) ,QH301-705.5 ,Genetics ,QH426-470 - Abstract
Abstract Background Diffuse invasion of glioblastoma cells through normal brain tissue is a key contributor to tumor aggressiveness, resistance to conventional therapies, and dismal prognosis in patients. A deeper understanding of how components of the tumor microenvironment (TME) contribute to overall tumor organization and to programs of invasion may reveal opportunities for improved therapeutic strategies. Results Towards this goal, we apply a novel computational workflow to a spatiotemporally profiled GBM xenograft cohort, leveraging the ability to distinguish human tumor from mouse TME to overcome previous limitations in the analysis of diffuse invasion. Our analytic approach, based on unsupervised deconvolution, performs reference-free discovery of cell types and cell activities within the complete GBM ecosystem. We present a comprehensive catalogue of 15 tumor cell programs set within the spatiotemporal context of 90 mouse brain and TME cell types, cell activities, and anatomic structures. Distinct tumor programs related to invasion align with routes of perivascular, white matter, and parenchymal invasion. Furthermore, sub-modules of genes serving as program network hubs are highly prognostic in GBM patients. Conclusion The compendium of programs presented here provides a basis for rational targeting of tumor and/or TME components. We anticipate that our approach will facilitate an ecosystem-level understanding of the immediate and long-term consequences of such perturbations, including the identification of compensatory programs that will inform improved combinatorial therapies.
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- 2024
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5. Spatiotemporal modeling reveals high-resolution invasion states in glioblastoma
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Manoharan, Varsha Thoppey, Abdelkareem, Aly, Gill, Gurveer, Brown, Samuel, Gillmor, Aaron, Hall, Courtney, Seo, Heewon, Narta, Kiran, Grewal, Sean, Dang, Ngoc Ha, Ahn, Bo Young, Osz, Kata, Lun, Xueqing, Mah, Laura, Zemp, Franz, Mahoney, Douglas, Senger, Donna L., Chan, Jennifer A., and Morrissy, A. Sorana
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- 2024
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6. Host cell CRISPR genomics and modelling reveal shared metabolic vulnerabilities in the intracellular development of Plasmodium falciparum and related hemoparasites
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Maurizio, Marina, Masid, Maria, Woods, Kerry, Caldelari, Reto, Doench, John G., Naguleswaran, Arunasalam, Joly, Denis, González-Fernández, Martín, Zemp, Jonas, Borteele, Mélanie, Hatzimanikatis, Vassily, Heussler, Volker, Rottenberg, Sven, and Olias, Philipp
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- 2024
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7. Minimally destructive hDNA extraction method for retrospective genetics of pinned historical Lepidoptera specimens
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Rayo, Enrique, Ulrich, Gabriel F., Zemp, Niklaus, Greeff, Michael, Schuenemann, Verena J., Widmer, Alex, and Fischer, Martin C.
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- 2024
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8. ASPSCR1-TFE3 reprograms transcription by organizing enhancer loops around hexameric VCP/p97
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Pozner, Amir, Li, Li, Verma, Shiv Prakash, Wang, Shuxin, Barrott, Jared J., Nelson, Mary L., Yu, Jamie S. E., Negri, Gian Luca, Colborne, Shane, Hughes, Christopher S., Zhu, Ju-Fen, Lambert, Sydney L., Carroll, Lara S., Smith-Fry, Kyllie, Stewart, Michael G., Kannan, Sarmishta, Jensen, Bodrie, John, Cini M., Sikdar, Saif, Liu, Hongrui, Dang, Ngoc Ha, Bourdage, Jennifer, Li, Jinxiu, Vahrenkamp, Jeffery M., Mortenson, Katelyn L., Groundland, John S., Wustrack, Rosanna, Senger, Donna L., Zemp, Franz J., Mahoney, Douglas J., Gertz, Jason, Zhang, Xiaoyang, Lazar, Alexander J., Hirst, Martin, Morin, Gregg B., Nielsen, Torsten O., Shen, Peter S., and Jones, Kevin B.
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- 2024
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9. Design of heat exchanger network physical layout in process plants using a mixed-integer model
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Bravim, Jr., Valter and Zemp, Roger J.
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- 2024
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10. Use of Photoacoustic Imaging to Study the Effects of Anemia on Placental Oxygen Saturation in Normoxic and Hypoxic Conditions
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Noble, Ronan M. N., Kirschenman, Raven, Wiedemeyer, Alyssa, Patel, Vaishvi, Rachid, Jad-Julian, Zemp, Roger J., Davidge, Sandra T., and Bourque, Stephane L.
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- 2024
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11. Host cell CRISPR genomics and modelling reveal shared metabolic vulnerabilities in the intracellular development of Plasmodium falciparum and related hemoparasites
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Marina Maurizio, Maria Masid, Kerry Woods, Reto Caldelari, John G. Doench, Arunasalam Naguleswaran, Denis Joly, Martín González-Fernández, Jonas Zemp, Mélanie Borteele, Vassily Hatzimanikatis, Volker Heussler, Sven Rottenberg, and Philipp Olias
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Science - Abstract
Abstract Parasitic diseases, particularly malaria (caused by Plasmodium falciparum) and theileriosis (caused by Theileria spp.), profoundly impact global health and the socioeconomic well-being of lower-income countries. Despite recent advances, identifying host metabolic proteins essential for these auxotrophic pathogens remains challenging. Here, we generate a novel metabolic model of human hepatocytes infected with P. falciparum and integrate it with a genome-wide CRISPR knockout screen targeting Theileria-infected cells to pinpoint shared vulnerabilities. We identify key host metabolic enzymes critical for the intracellular survival of both of these lethal hemoparasites. Remarkably, among the metabolic proteins identified by our synergistic approach, we find that host purine and heme biosynthetic enzymes are essential for the intracellular survival of P. falciparum and Theileria, while other host enzymes are only essential under certain metabolic conditions, highlighting P. falciparum’s adaptability and ability to scavenge nutrients selectively. Unexpectedly, host porphyrins emerge as being essential for both parasites. The shared vulnerabilities open new avenues for developing more effective therapies against these debilitating diseases, with the potential for broader applicability in combating apicomplexan infections.
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- 2024
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12. Observing glacier elevation changes from spaceborne optical and radar sensors – an inter-comparison experiment using ASTER and TanDEM-X data
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L. Piermattei, M. Zemp, C. Sommer, F. Brun, M. H. Braun, L. M. Andreassen, J. M. C. Belart, E. Berthier, A. Bhattacharya, L. Boehm Vock, T. Bolch, A. Dehecq, I. Dussaillant, D. Falaschi, C. Florentine, D. Floricioiu, C. Ginzler, G. Guillet, R. Hugonnet, M. Huss, A. Kääb, O. King, C. Klug, F. Knuth, L. Krieger, J. La Frenierre, R. McNabb, C. McNeil, R. Prinz, L. Sass, T. Seehaus, D. Shean, D. Treichler, A. Wendt, and R. Yang
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Environmental sciences ,GE1-350 ,Geology ,QE1-996.5 - Abstract
Observations of glacier mass changes are key to understanding the response of glaciers to climate change and related impacts, such as regional runoff, ecosystem changes, and global sea level rise. Spaceborne optical and radar sensors make it possible to quantify glacier elevation changes, and thus multi-annual mass changes, on a regional and global scale. However, estimates from a growing number of studies show a wide range of results with differences often beyond uncertainty bounds. Here, we present the outcome of a community-based inter-comparison experiment using spaceborne optical stereo (ASTER) and synthetic aperture radar interferometry (TanDEM-X) data to estimate elevation changes for defined glaciers and target periods that pose different assessment challenges. Using provided or self-processed digital elevation models (DEMs) for five test sites, 12 research groups provided a total of 97 spaceborne elevation-change datasets using various processing approaches. Validation with airborne data showed that using an ensemble estimate is promising to reduce random errors from different instruments and processing methods but still requires a more comprehensive investigation and correction of systematic errors. We found that scene selection, DEM processing, and co-registration have the biggest impact on the results. Other processing steps, such as treating spatial data voids, differences in survey periods, or radar penetration, can still be important for individual cases. Future research should focus on testing different implementations of individual processing steps (e.g. co-registration) and addressing issues related to temporal corrections, radar penetration, glacier area changes, and density conversion. Finally, there is a clear need for our community to develop best practices, use open, reproducible software, and assess overall uncertainty to enhance inter-comparison and empower physical process insights across glacier elevation-change studies.
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- 2024
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13. Minimally destructive hDNA extraction method for retrospective genetics of pinned historical Lepidoptera specimens
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Enrique Rayo, Gabriel F. Ulrich, Niklaus Zemp, Michael Greeff, Verena J. Schuenemann, Alex Widmer, and Martin C. Fischer
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Medicine ,Science - Abstract
Abstract The millions of specimens stored in entomological collections provide a unique opportunity to study historical insect diversity. Current technologies allow to sequence entire genomes of historical specimens and estimate past genetic diversity of present-day endangered species, advancing our understanding of anthropogenic impact on genetic diversity and enabling the implementation of conservation strategies. A limiting challenge is the extraction of historical DNA (hDNA) of adequate quality for sequencing platforms. We tested four hDNA extraction protocols on five body parts of pinned false heath fritillary butterflies, Melitaea diamina, aiming to minimise specimen damage, preserve their scientific value to the collections, and maximise DNA quality and yield for whole-genome re-sequencing. We developed a very effective approach that successfully recovers hDNA appropriate for short-read sequencing from a single leg of pinned specimens using silica-based DNA extraction columns and an extraction buffer that includes SDS, Tris, Proteinase K, EDTA, NaCl, PTB, and DTT. We observed substantial variation in the ratio of nuclear to mitochondrial DNA in extractions from different tissues, indicating that optimal tissue choice depends on project aims and anticipated downstream analyses. We found that sufficient DNA for whole genome re-sequencing can reliably be extracted from a single leg, opening the possibility to monitor changes in genetic diversity maintaining the scientific value of specimens while supporting current and future conservation strategies.
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- 2024
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14. Comparing airborne and terrestrial LiDAR with ground-based inventory metrics of vegetation structural complexity in oil palm agroforests
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Vannesa Montoya-Sánchez, Nicolò Camarretta, Martin Ehbrecht, Michael Schlund, Gustavo Brant Paterno, Dominik Seidel, Nathaly Guerrero-Ramírez, Fabian Brambach, Dirk Hölscher, Holger Kreft, Bambang Irawan, Leti Sundawati, and Delphine Clara Zemp
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Data integration ,LiDAR technologies ,Multivariate analysis ,Sumatra ,Vegetation structure ,Ecology ,QH540-549.5 - Abstract
Vegetation structural complexity is an important component of forest ecosystems, influencing biodiversity and functioning. Due to the heterogeneous distribution of vegetation elements, structural complexity underpins ecological dynamics, species composition, microclimate, and habitat diversity. Field measurements and Light Detection and Ranging (LiDAR) data, such as airborne (ALS) and terrestrial (TLS), can assess structural characteristics of forest and agroforestry systems at various spatial scales. This assessment is urgently needed for monitoring ecosystem restoration in degraded lands (e.g., in oil palm landscapes), where it is not well-known how structural measures derived from these different approaches relate to each other. Here, we compared the degree of correlation between individual and multivariate datasets of vegetation structural complexity metrics derived from ALS, TLS, and ground-based inventory approaches. The study was conducted in a 140 ha oil palm monoculture, enriched with 52 plots in the form of tree islands representing agroforestry systems of varying sizes and planted diversity levels in Sumatra, Indonesia. Our datasets comprised 25 ALS, five TLS, and nine ground-based inventory metrics. We studied correlations among metrics related to traditional stand summary, heterogeneity, and vertical and horizontal stand structure. We used principal component analysis for data dimensionality reduction, correlation analysis to quantify the strength of relationships between metrics, and Procrustes analysis to investigate the agreement between datasets. Significant correlations were found between ALS and TLS metrics for canopy density (r = 0.79) and maximum tree height (r = 0.58) and between ALS and ground-based inventory measures of stand heterogeneity and height diversity (r between 0.60 and −0.63). Further, we observed significant agreements between the ordinations of multivariate datasets (r = 0.56 for ALS − TLS; and r = 0.46 for ALS – ground-based inventory). Our findings underline the ability of ALS to capture structural complexity patterns, especially for canopy gap dynamics and vegetation height metrics, as captured by TLS, and for measures of heterogeneity and vertical structure as captured by ground-based inventories. Our study highlights the strength of each approach and underscores the potential of integrating ALS and TLS with ground-based inventories for a comprehensive characterization of vegetation structure in complex agroforestry systems, which can provide guidance for their management and support ecosystem restoration monitoring efforts.
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- 2024
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15. Enhancing Tree Performance Through Species Mixing: Review of a Quarter-Century of TreeDivNet Experiments Reveals Research Gaps and Practical Insights
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Depauw, Leen, De Lombaerde, Emiel, Dhiedt, Els, Blondeel, Haben, Abdala-Roberts, Luis, Auge, Harald, Barsoum, Nadia, Bauhus, Jürgen, Chu, Chengjin, Damtew, Abebe, Eisenhauer, Nico, Fagundes, Marina V., Ganade, Gislene, Gendreau-Berthiaume, Benoit, Godbold, Douglas, Gravel, Dominique, Guillemot, Joannès, Hajek, Peter, Hector, Andrew, Hérault, Bruno, Jactel, Hervé, Koricheva, Julia, Kreft, Holger, Liu, Xiaojuan, Mereu, Simone, Messier, Christian, Muys, Bart, Nock, Charles A., Paquette, Alain, Parker, John D., Parker, William C., Paterno, Gustavo B., Perring, Michael P., Ponette, Quentin, Potvin, Catherine, Reich, Peter B., Rewald, Boris, Scherer-Lorenzen, Michael, Schnabel, Florian, Sousa-Silva, Rita, Weih, Martin, Zemp, Delphine Clara, Verheyen, Kris, and Baeten, Lander
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- 2024
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16. The Moderating Role of Dyadic Coping in the Link Between Parenting Stress and Couple Relationship Quality in Parents of Children with ADHD
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Schirl, Jessica, Ruth, Elisabeth, and Zemp, Martina
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- 2023
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17. Intimate Pride: a Tri-Nation Study on Associations between Positive Minority Identity Aspects and Relationship Quality in Sexual Minorities from German-Speaking Countries
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Siegel, Magdalena, Randall, Ashley K., Lannutti, Pamela J., Fischer, Melanie S., Gandhi, Yuvamathi, Lukas, Raphaela, Meuwly, Nathalie, Rosta-Filep, Orsolya, van Stein, Katharina, Ditzen, Beate, Martos, Tamás, Schneckenreiter, Carmen, Totenhagen, Casey J., and Zemp, Martina
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- 2023
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18. Natural processes and natureculture – A relational understanding of nature amongst local stakeholders in Swiss parks
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Anna Deplazes-Zemp, Annina H. Michel, Timo Oliveri, Rebecca Schneiter, Lucia Thaler, and Norman Backhaus
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Seb O’Connor ,Active nature ,‘nature’ concepts ,natureculture ,relational turn ,relational values ,Human ecology. Anthropogeography ,GF1-900 ,Environmental sciences ,GE1-350 - Abstract
Various scholars have criticized that formal Western thinking was dichotomous and substantialist, leading to an alienation from nature and to its exploitation in industrialized societies. Critics argue that a relational turn towards a more holistic, process-based and relational approach to address the world would be an important step to overcome these problems. Such a relational turn involves a shift towards more flexible and inclusive concepts. We analyse ‘nature’ concepts of local stakeholders in Swiss nature parks to examine whether they contain any relational elements. Indeed, we found that all stakeholders interviewed see themselves as part of nature. Many reported how they experience nature in active processes and see nature as a collaborator and partner. Moreover, they do not strictly separate between natural and cultural elements in their environment. We conclude that a relational turn in environmental policy in Western countries could build on these relational elements in nature concepts of the local population.
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- 2024
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19. Moving beyond stewardship to partnership with nature: how Swiss alpine farmers’ relationships to nature and relational values are co-constituted
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Mollie Chapman and Anna Deplazes-Zemp
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Berta Martin-Lopez ,Human nature relationships ,relational values ,stewardship ,partnership ,qualitative interviews ,Human ecology. Anthropogeography ,GF1-900 ,Environmental sciences ,GE1-350 - Abstract
Ecologically considerate use of nature (including agriculture) has often been associated with ‘stewardship’ as a human-nature relationship which involves human care, responsibility and accountability and is thus more sustainable than the alternative human-nature relationship of manager of nature. We show that the consideration of nature in agriculture can go further than stewardship by presenting data from qualitative interviews with Swiss Alpine farmers indicating that many of them view their relationship with nature as a form of partnership. Drawing on literature of human-nature partnership, we characterize this relationship by 1) bidirectionality – a give and take between nature and humans–, 2) the understanding of nature as a subject rather than an object and 3) interaction with nature that consists of collaboration rather than giving commands. The mountain farmers expressed all of these features in their farming practices and descriptions of their role in nature. A few farmers even saw their role as subordinates to nature, for which we introduced the new human-nature relationship category of “apprenticeship”. We further suggest that the partnership relation between humans and nature in many respects shares key features with relational values, for instance in its non-centric nature and in its emphasis of the combination of benefits for people with care for nature. In that sense, we aim at combining different accounts of inclusive, non-dichotomous and context-sensitive dealings with nature and we suggest that this combination is applicable also to contexts beyond agriculture.
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- 2024
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20. A computational pipeline for identifying gene targets and signalling pathways in cancer cells to improve lymphocyte infiltration and immune checkpoint therapy efficacyResearch in context
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Sahar Nasr, Lin Li, Mohammad Asad, Mahroo Moridi, Megan Wang, Franz J. Zemp, Douglas J. Mahoney, and Edwin Wang
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T cell infiltration ,Tumour microenvironment ,Immune checkpoint blockade ,Immunotherapy ,Antigen presentation ,SUN1 ,Medicine ,Medicine (General) ,R5-920 - Abstract
Summary: Background: Tumour-infiltrating lymphocytes (TILs) are crucial for effective immune checkpoint blockade (ICB) therapy in solid tumours. However, ∼70% of these tumours exhibit poor lymphocyte infiltration, rendering ICB therapies less effective. Methods: We developed a bioinformatics pipeline integrating multiple previously unconsidered factors or datasets, including tumour cell immune-related pathways, copy number variation (CNV), and single tumour cell sequencing data, as well as tumour mRNA-seq data and patient survival data, to identify targets that can potentially improve T cell infiltration and enhance ICB efficacy. Furthermore, we conducted wet-lab experiments and successfully validated one of the top-identified genes. Findings: We applied this pipeline in solid tumours of the Cancer Genome Atlas (TCGA) and identified a set of genes in 18 cancer types that might potentially improve lymphocyte infiltration and ICB efficacy, providing a valuable drug target resource to be further explored. Importantly, we experimentally validated SUN1, which had not been linked to T cell infiltration and ICB therapy previously, but was one of the top-identified gene targets among 3 cancer types based on the pipeline, in a mouse colon cancer syngeneic model. We showed that Sun1 KO could significantly enhance antigen presentation, increase T-cell infiltration, and improve anti-PD1 treatment efficacy. Moreover, with a single-cell multiome analysis, we identified subgene regulatory networks (sub-GRNs) showing Stat proteins play important roles in enhancing the immune-related pathways in Sun1-KO cancer cells. Interpretation: This study not only established a computational pipeline for discovering new gene targets and signalling pathways in cancer cells that block T-cell infiltration, but also provided a gene target pool for further exploration in improving lymphocyte infiltration and ICB efficacy in solid tumours. Funding: A full list of funding bodies that contributed to this study can be found in the Acknowledgements section.
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- 2024
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21. Earth-surface monitoring is at risk — more imaging tools are urgently needed
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Berthier, Etienne, Kargel, Jeffrey S., Raup, Bruce, and Zemp, Michael
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- 2024
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22. ASPSCR1-TFE3 reprograms transcription by organizing enhancer loops around hexameric VCP/p97
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Amir Pozner, Li Li, Shiv Prakash Verma, Shuxin Wang, Jared J. Barrott, Mary L. Nelson, Jamie S. E. Yu, Gian Luca Negri, Shane Colborne, Christopher S. Hughes, Ju-Fen Zhu, Sydney L. Lambert, Lara S. Carroll, Kyllie Smith-Fry, Michael G. Stewart, Sarmishta Kannan, Bodrie Jensen, Cini M. John, Saif Sikdar, Hongrui Liu, Ngoc Ha Dang, Jennifer Bourdage, Jinxiu Li, Jeffery M. Vahrenkamp, Katelyn L. Mortenson, John S. Groundland, Rosanna Wustrack, Donna L. Senger, Franz J. Zemp, Douglas J. Mahoney, Jason Gertz, Xiaoyang Zhang, Alexander J. Lazar, Martin Hirst, Gregg B. Morin, Torsten O. Nielsen, Peter S. Shen, and Kevin B. Jones
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Science - Abstract
Abstract The t(X,17) chromosomal translocation, generating the ASPSCR1::TFE3 fusion oncoprotein, is the singular genetic driver of alveolar soft part sarcoma (ASPS) and some Xp11-rearranged renal cell carcinomas (RCCs), frustrating efforts to identify therapeutic targets for these rare cancers. Here, proteomic analysis identifies VCP/p97, an AAA+ ATPase with known segregase function, as strongly enriched in co-immunoprecipitated nuclear complexes with ASPSCR1::TFE3. We demonstrate that VCP is a likely obligate co-factor of ASPSCR1::TFE3, one of the only such fusion oncoprotein co-factors identified in cancer biology. Specifically, VCP co-distributes with ASPSCR1::TFE3 across chromatin in association with enhancers genome-wide. VCP presence, its hexameric assembly, and its enzymatic function orchestrate the oncogenic transcriptional signature of ASPSCR1::TFE3, by facilitating assembly of higher-order chromatin conformation structures demonstrated by HiChIP. Finally, ASPSCR1::TFE3 and VCP demonstrate co-dependence for cancer cell proliferation and tumorigenesis in vitro and in ASPS and RCC mouse models, underscoring VCP’s potential as a novel therapeutic target.
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- 2024
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23. Radiation Impedance of Rectangular CMUTs
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Shayan Khorassany, Eric B. Dew, Mohammad Rahim Sobhani, and Roger J. Zemp
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capacitive micromachined ultrasonic transducers ,acoustic radiation impedance ,rectangular membranes ,plate theory ,microelectromechanical systems ,transducer optimization ,Chemical technology ,TP1-1185 - Abstract
Recently, capacitive micromachined ultrasound transducers (CMUTs) with long rectangular membranes have demonstrated performance advantages over conventional piezoelectric transducers; however, modeling these CMUT geometries has been limited to computationally burdensome numerical methods. Improved fast modeling methods, such as equivalent circuit models, could help achieve designs with even better performance. The primary obstacle in developing such methods is the lack of tractable methods for computing the radiation impedance of clamped rectangular radiators. This paper presents a method that approximates the velocity profile using a polynomial shape model to rapidly and accurately estimate radiation impedance. The validity of the approximate velocity profile and corresponding radiation impedance calculation was assessed using finite element simulations for a variety of membrane aspect ratios and bias voltages. Our method was evaluated for rectangular radiators with width:length ratios from 1:1 up to 1:25. At all aspect ratios, the radiation resistance was closely modeled. However, when calculating the radiation reactance, our initial approach was only accurate for low aspect ratios. This motivated us to consider an alternative shape model for high aspect ratios, which was more accurate when compared with FEM. To facilitate the development of future rectangular CMUTs, we provide a MATLAB script that quickly calculates radiation impedance using both methods.
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- 2024
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24. Steering-by-leaning facilitates intuitive movement control and improved efficiency in manual wheelchairs
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Togni, Reto, Zemp, Roland, Kirch, Pleuni, Plüss, Stefan, Vegter, Riemer J. K., and Taylor, William R.
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- 2023
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25. Deep learning-enabled realistic virtual histology with ultraviolet photoacoustic remote sensing microscopy
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Martell, Matthew T., Haven, Nathaniel J. M., Cikaluk, Brendyn D., Restall, Brendon S., McAlister, Ewan A., Mittal, Rohan, Adam, Benjamin A., Giannakopoulos, Nadia, Peiris, Lashan, Silverman, Sveta, Deschenes, Jean, Li, Xingyu, and Zemp, Roger J.
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- 2023
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26. Landscape heterogeneity and soil biota are central to multi-taxa diversity for oil palm landscape restoration
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Montoya-Sánchez, Vannesa, Kreft, Holger, Arimond, Isabelle, Ballauff, Johannes, Berkelmann, Dirk, Brambach, Fabian, Daniel, Rolf, Grass, Ingo, Hines, Jes, Hölscher, Dirk, Irawan, Bambang, Krause, Alena, Polle, Andrea, Potapov, Anton, Sachsenmaier, Lena, Scheu, Stefan, Sundawati, Leti, Tscharntke, Teja, Zemp, Delphine Clara, and Guerrero-Ramírez, Nathaly
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- 2023
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27. macroH2A2 antagonizes epigenetic programs of stemness in glioblastoma
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Nikolic, Ana, Maule, Francesca, Bobyn, Anna, Ellestad, Katrina, Paik, Seungil, Marhon, Sajid A., Mehdipour, Parinaz, Lun, Xueqing, Chen, Huey-Miin, Mallard, Claire, Hay, Alexander J., Johnston, Michael J., Gafuik, Christopher J., Zemp, Franz J., Shen, Yaoqing, Ninkovic, Nicoletta, Osz, Katalin, Labit, Elodie, Berger, N. Daniel, Brownsey, Duncan K., Kelly, John J., Biernaskie, Jeff, Dirks, Peter B., Derksen, Darren J., Jones, Steven J. M., Senger, Donna L., Chan, Jennifer A., Mahoney, Douglas J., De Carvalho, Daniel D., and Gallo, Marco
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- 2023
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28. Investigating mechanisms of laser pulse-induced reflectivity modulations in photoacoustic remote sensing with a 10 million frames-per-second camera
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Haven, Nathaniel J. M., Martell, Matthew T., Li, Haoyang, Hogan, James D., and Zemp, Roger J.
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- 2023
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29. “But at home, with the midwife, you are a person”: experiences and impact of a new early postpartum home-based midwifery care model in the view of women in vulnerable family situations
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Schwind, Bettina, Zemp, Elisabeth, Jafflin, Kristen, Späth, Anna, Barth, Monika, Maigetter, Karen, Merten, Sonja, and Kurth, Elisabeth
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- 2023
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30. Steering-by-leaning facilitates intuitive movement control and improved efficiency in manual wheelchairs
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Reto Togni, Roland Zemp, Pleuni Kirch, Stefan Plüss, Riemer J. K. Vegter, and William R. Taylor
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Manual wheelchair propulsion ,Steering ,Cross slope ,Tilt ,Turning ,Agility ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Abstract Background Manual wheelchair propulsion is widely accepted to be biomechanically inefficient, with a high prevalence of shoulder pain and injuries among users. Directional control during wheelchair movement is a major, yet largely overlooked source of energy loss: changing direction or maintaining straightforward motion on tilted surfaces requires unilateral braking. This study evaluates the efficiency of a novel steering-by-leaning mechanism that guides wheelchair turning through upper body leaning. Methods 16 full-time wheelchair users and 15 able-bodied novices each completed 12 circuits of an adapted Illinois Agility Test-course that included tilted, straight, slalom, and 180° turning sections in a prototype wheelchair at a self-selected functional speed. Trials were alternated between conventional and steering-by-leaning modes while propulsion forces were recorded via instrumented wheelchair wheels. Time to completion, travelled distance, positive/negative power, and work done, were all calculated to allow comparison of the control modes using repeated measures analysis of variance. Results Substantial average energy reductions of 51% (able-bodied group) and 35% (wheelchair user group) to complete the task were observed when using the steering-by-leaning system. Simultaneously, able-bodied subjects were approximately 23% faster whereby completion times did not differ for wheelchair users. Participants in both groups wheeled some 10% further with the novel system. Differences were most pronounced during turning and on tilted surfaces where the steering-by-leaning system removed the need for braking for directional control. Conclusions Backrest-actuated steering systems on manual wheelchairs can make a meaningful contribution towards reducing shoulder usage while contributing to independent living. Optimisation of propulsion techniques could further improve functional outcomes.
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- 2023
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31. Deep learning-enabled realistic virtual histology with ultraviolet photoacoustic remote sensing microscopy
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Matthew T. Martell, Nathaniel J. M. Haven, Brendyn D. Cikaluk, Brendon S. Restall, Ewan A. McAlister, Rohan Mittal, Benjamin A. Adam, Nadia Giannakopoulos, Lashan Peiris, Sveta Silverman, Jean Deschenes, Xingyu Li, and Roger J. Zemp
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Science - Abstract
Abstract The goal of oncologic surgeries is complete tumor resection, yet positive margins are frequently found postoperatively using gold standard H&E-stained histology methods. Frozen section analysis is sometimes performed for rapid intraoperative margin evaluation, albeit with known inaccuracies. Here, we introduce a label-free histological imaging method based on an ultraviolet photoacoustic remote sensing and scattering microscope, combined with unsupervised deep learning using a cycle-consistent generative adversarial network for realistic virtual staining. Unstained tissues are scanned at rates of up to 7 mins/cm2, at resolution equivalent to 400x digital histopathology. Quantitative validation suggests strong concordance with conventional histology in benign and malignant prostate and breast tissues. In diagnostic utility studies we demonstrate a mean sensitivity and specificity of 0.96 and 0.91 in breast specimens, and respectively 0.87 and 0.94 in prostate specimens. We also find virtual stain quality is preferred (P = 0.03) compared to frozen section analysis in a blinded survey of pathologists.
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- 2023
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32. Spatial and temporal patterns in the population genomics of the European cockchafer Melolontha melolontha in the Alpine region
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Chiara Pedrazzini, Hermann Strasser, Niklaus Zemp, Rolf Holderegger, Franco Widmer, and Jürg Enkerli
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ddRAD ,European cockchafer ,isolation by distance ,mixed model ,population genomic structure ,temporal isolation ,Evolution ,QH359-425 - Abstract
Abstract The European cockchafer Melolontha melolontha is an agricultural pest in many European countries. Populations have a synchronized 3 or 4 years life cycle, leading to temporally isolated populations. Despite the economic importance and availability of comprehensive historical as well as current records on cockchafer occurrence, population genomic analyses of M. melolontha are missing. For example, the effects of geographic separation caused by the mountainous terrain of the Alps and of temporal isolation on the genomic structure of M. melolontha still remain unknown. To address this gap, we genotyped 475 M. melolontha adults collected during 3 years from 35 sites in a central Alpine region. Subsequent population structure analyses discriminated two main genetic clusters, i.e., the South Tyrol cluster including collections located southeast of the Alpine mountain range, and a northwestern alpine cluster with all the other collections, reflecting distinct evolutionary history and geographic barriers. The “passo di Resia” linking South and North Tyrol represented a regional contact zone of the two genetic clusters, highlighting genomic differentiation between the collections from the northern and southern regions. Although the collections from northwestern Italy were assigned to the northwestern alpine genetic cluster, they displayed evidence of admixture with the South Tyrolean genetic cluster, suggesting shared ancestry. A linear mixed model confirmed that both geographic distance and, to a lower extent, also temporal isolation had a significant effect on the genetic distance among M. melolontha populations. These effects may be attributed to limited dispersal capacity and reproductive isolation resulting from synchronized and non‐synchronized swarming flights, respectively. This study contributes to the understanding of the phylogeography of an organism that is recognized as an agricultural problem and provides significant information on the population genomics of insect species with prolonged temporally shifted and locally synchronized life cycles.
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- 2023
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33. A genetic switch controls Pseudomonas aeruginosa surface colonization
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Manner, Christina, Dias Teixeira, Raphael, Saha, Dibya, Kaczmarczyk, Andreas, Zemp, Raphaela, Wyss, Fabian, Jaeger, Tina, Laventie, Benoit-Joseph, Boyer, Sebastien, Malone, Jacob G., Qvortrup, Katrine, Andersen, Jens Bo, Givskov, Michael, Tolker-Nielsen, Tim, Hiller, Sebastian, Drescher, Knut, and Jenal, Urs
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- 2023
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34. Tree islands enhance biodiversity and functioning in oil palm landscapes
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Zemp, Delphine Clara, Guerrero-Ramirez, Nathaly, Brambach, Fabian, Darras, Kevin, Grass, Ingo, Potapov, Anton, Röll, Alexander, Arimond, Isabelle, Ballauff, Johannes, Behling, Hermann, Berkelmann, Dirk, Biagioni, Siria, Buchori, Damayanti, Craven, Dylan, Daniel, Rolf, Gailing, Oliver, Ellsäßer, Florian, Fardiansah, Riko, Hennings, Nina, Irawan, Bambang, Khokthong, Watit, Krashevska, Valentyna, Krause, Alena, Kückes, Johanna, Li, Kevin, Lorenz, Hendrik, Maraun, Mark, Merk, Miryam Sarah, Moura, Carina C. M., Mulyani, Yeni A., Paterno, Gustavo B., Pebrianti, Herni Dwinta, Polle, Andrea, Prameswari, Di Ajeng, Sachsenmaier, Lena, Scheu, Stefan, Schneider, Dominik, Setiajiati, Fitta, Setyaningsih, Christina Ani, Sundawati, Leti, Tscharntke, Teja, Wollni, Meike, Hölscher, Dirk, and Kreft, Holger
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- 2023
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35. Landscape heterogeneity and soil biota are central to multi-taxa diversity for oil palm landscape restoration
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Vannesa Montoya-Sánchez, Holger Kreft, Isabelle Arimond, Johannes Ballauff, Dirk Berkelmann, Fabian Brambach, Rolf Daniel, Ingo Grass, Jes Hines, Dirk Hölscher, Bambang Irawan, Alena Krause, Andrea Polle, Anton Potapov, Lena Sachsenmaier, Stefan Scheu, Leti Sundawati, Teja Tscharntke, Delphine Clara Zemp, and Nathaly Guerrero-Ramírez
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Geology ,QE1-996.5 ,Environmental sciences ,GE1-350 - Abstract
Abstract Enhancing biodiversity in monoculture-dominated landscapes is a key sustainability challenge that requires considering the spatial organization of ecological communities (beta diversity). Here, we tested whether increasing landscape heterogeneity, through establishing 52 tree islands in an oil-palm landscape, is a suitable restoration strategy to enhance the diversity of six taxa (multi-taxa diversity). Further, we elucidated whether patterns in the spatial distribution of above- and below-ground taxa are related, and their role in shaping multi-taxa beta diversity. After five years, islands enhanced diversity at the landscape scale by fostering unique species (turnover). Partial correlation networks revealed that dissimilarity, in vegetation structural complexity and soil conditions, impacts multi-taxa beta diversity and turnover. In addition, soil fauna, bacteria, and fungi were more strongly associated with the overall community than aboveground taxa. Thus, strategies aiming to enhance multi-taxa diversity should consider the central role of landscape heterogeneity and soil biota.
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- 2023
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36. The unmet need for mental health support among persons with disabilities in Somalia: Principal correlates and barriers to access
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Charles Zemp, Frédérique Vallières, Mohamed Abdul Jama, Abdifatah Hassan Ali, Kirsten Young, and Caroline Jagoe
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disability ,mental health ,Somalia ,barriers to care ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Disability and mental ill-health may be especially prevalent in Somalia, largely due to a protracted armed conflict and its consequent humanitarian crises. Little, if any, research to date, however, has simultaneously explored disability- and mental health-related factors in the Somali context. Using both descriptive and regression analytical techniques, we aimed to determine how increasing levels of functional impairment reported across different disability domains (i.e., visual, hearing and cognition), number of concomitant disabilities, and other empirically supported variables (such as employment and sex) are associated with the likelihood of self-identifying the need for mental health support among a sample (N = 1,355) of Somalis with disabilities, as well as identify the common barriers to such support. Despite most participants self-identifying a need for mental health support, only 15% were able to access it, with the most common barriers being the cost of services and the unavailability of local services. Being female, married, and having increasing levels of functional difficulty in the cognitive, mobility and self-care domains of disability were each significantly associated with an increased likelihood of the self-identified need for mental health support. This study’s findings highlight potential points of prioritisation for mental health policy and programming in Somalia. A Somali version of this abstract can be found in the Supplementary Material.
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- 2024
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37. 45 Jahre Schweizer Sprachenpolitik für die Primarschule – Rückblick und Ausblick aus Sicht der Schweizer Lehrerorganisationen
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Beat Zemp
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3/2018 ,Language and Literature ,Special aspects of education ,LC8-6691 - Abstract
Depuis l’adoption des recommandations de la CDIP concernant l’enseignement des langues au primaire en 1975, les conditions pour une mise en oeuvre et une harmonisation réussie de l’enseignement précoce des langues étrangères n‘ont toujours pas été réunies. Le problème a par ailleurs été encore aggravé par l‘introduction de l’anglais comme troisième langue puis plus récemment par les mesures d’économies mises en place. Pourtant, nous montrerons que le soutien massif du gouvernement fédéral ainsi que des organisations faîtières des enseignants a permis d’éviter un affaiblissement des langues nationales et de trop grandes divergences entre les cantons. Enfin, nous jetterons un regard en arrière et montrerons que le scepticisme des enseignants de l’époque appparait aujourd‘hui légitime: De l’enseignement ludique promis, nous sommes en effet passés à des branches de certification.
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- 2024
38. Current practices of physiotherapists in Switzerland regarding fall risk-assessment for community-dwelling older adults: A national cross-sectional survey [version 2; peer review: 2 approved]
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Guillaume Roulet, Damiano Zemp, Roger Hilfiker, Alice Bridel, Anne-Gabrielle Mittaz Hager, and Morgane Duc
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Elderly ,Accidental falls ,Prevention ,Risk assessment ,eng ,Medicine ,Science - Abstract
Background Falls can strongly impact older people’s quality of life, health, and lifestyle. Multifactorial assessment can determine an individual’s risk of falling as the first step for fall prevention intervention. Physiotherapists have an essential role to play in assessing fall risk by older adults living in the community. In the absence of published data on this topic in Switzerland, this study investigated the current practices of physiotherapists to determine whether those are in line with recommendations. Methods An anonymous cross-sectional survey was undertaken among physiotherapists practising in Switzerland between the 21st of November and the 31st of December 2020. A priori and exploratory hypotheses were tested. Responses to open-ended questions were grouped into themes for analysis. Results A total of 938 questionnaires from all three language regions of Switzerland was analysed. Participants worked in different settings, with a higher representation of private practice self-employees (56%). Standardised fall risk assessments or instruments were used by 580 (62%) participants, while 235 (25%) preferred subjective assessment of fall risk only. Differences in fall risk assessment were observed according to the workplace setting (adjusted OR 1.93, 95% CI 1.37 to 2.7) and education level (trend test, p
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- 2023
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39. macroH2A2 antagonizes epigenetic programs of stemness in glioblastoma
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Ana Nikolic, Francesca Maule, Anna Bobyn, Katrina Ellestad, Seungil Paik, Sajid A. Marhon, Parinaz Mehdipour, Xueqing Lun, Huey-Miin Chen, Claire Mallard, Alexander J. Hay, Michael J. Johnston, Christopher J. Gafuik, Franz J. Zemp, Yaoqing Shen, Nicoletta Ninkovic, Katalin Osz, Elodie Labit, N. Daniel Berger, Duncan K. Brownsey, John J. Kelly, Jeff Biernaskie, Peter B. Dirks, Darren J. Derksen, Steven J. M. Jones, Donna L. Senger, Jennifer A. Chan, Douglas J. Mahoney, Daniel D. De Carvalho, and Marco Gallo
- Subjects
Science - Abstract
Abstract Self-renewal is a crucial property of glioblastoma cells that is enabled by the choreographed functions of chromatin regulators and transcription factors. Identifying targetable epigenetic mechanisms of self-renewal could therefore represent an important step toward developing effective treatments for this universally lethal cancer. Here we uncover an epigenetic axis of self-renewal mediated by the histone variant macroH2A2. With omics and functional assays deploying patient-derived in vitro and in vivo models, we show that macroH2A2 shapes chromatin accessibility at enhancer elements to antagonize transcriptional programs of self-renewal. macroH2A2 also sensitizes cells to small molecule-mediated cell death via activation of a viral mimicry response. Consistent with these results, our analyses of clinical cohorts indicate that high transcriptional levels of this histone variant are associated with better prognosis of high-grade glioma patients. Our results reveal a targetable epigenetic mechanism of self-renewal controlled by macroH2A2 and suggest additional treatment approaches for glioblastoma patients.
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- 2023
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40. 'But at home, with the midwife, you are a person': experiences and impact of a new early postpartum home-based midwifery care model in the view of women in vulnerable family situations
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Bettina Schwind, Elisabeth Zemp, Kristen Jafflin, Anna Späth, Monika Barth, Karen Maigetter, Sonja Merten, and Elisabeth Kurth
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Early postpartum care ,Midwifery ,Home visits ,Women’s experiences ,Vulnerable family situations ,Empowerment ,Public aspects of medicine ,RA1-1270 - Abstract
Abstract Background Postpartum home-based midwifery care is covered by basic health insurance in Switzerland for all families with newborns but must be self-organized. To ensure access for all, Familystart, a network of self-employed midwives, launched a new care model in 2012 by ensuring the transition from hospital to home through cooperation with maternity hospitals in the Basel area. It has particularly improved the access to follow-up care for families in vulnerable situations needing support beyond basic services. In 2018, the SORGSAM (Support at the Start of Life) project was initiated by Familystart to enhance parental resources for better postpartum health outcomes for mothers and children through offering improved assistance to psychosocially and economically disadvantaged families. First, midwives have access to first-line telephone support to discuss challenging situations and required actions. Second, the SORGSAM hardship fund provides financial compensation to midwives for services not covered by basic health insurance. Third, women receive financial emergency support from the hardship fund. Aim The aim was to explore how women living in vulnerable family situations experienced the new early postpartum home-based midwifery care model provided in the context of the SORGSAM project, and how they experienced its impact. Methods Findings are reported from the qualitative part of the mixed-methods evaluation of the SORGSAM project. They are based on the results of seven semi-structured interviews with women who, due to a vulnerable family postpartum situation at home, received the SORGSAM support. Data were analyzed following thematic analysis. Results Interviewed women experienced the early postpartum care at home, as “relieving and strengthening” in that midwives coordinated patient care that opened up access to appropriate community-based support services. The mothers expressed that they felt a reduction in stress, an increase in resilience, enhanced mothering skills, and greater parental resources. These were attributed to familiar and trusting relationships with their midwives where participants acknowledged deep gratitude. Conclusion The findings show the high acceptance of the new early postpartum midwifery care model. These indicate how such a care model can improve the well-being of women in vulnerable family situations and may prevent early chronic stress in children.
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- 2023
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41. Heat stored in the Earth system 1960–2020: where does the energy go?
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K. von Schuckmann, A. Minière, F. Gues, F. J. Cuesta-Valero, G. Kirchengast, S. Adusumilli, F. Straneo, M. Ablain, R. P. Allan, P. M. Barker, H. Beltrami, A. Blazquez, T. Boyer, L. Cheng, J. Church, D. Desbruyeres, H. Dolman, C. M. Domingues, A. García-García, D. Giglio, J. E. Gilson, M. Gorfer, L. Haimberger, M. Z. Hakuba, S. Hendricks, S. Hosoda, G. C. Johnson, R. Killick, B. King, N. Kolodziejczyk, A. Korosov, G. Krinner, M. Kuusela, F. W. Landerer, M. Langer, T. Lavergne, I. Lawrence, Y. Li, J. Lyman, F. Marti, B. Marzeion, M. Mayer, A. H. MacDougall, T. McDougall, D. P. Monselesan, J. Nitzbon, I. Otosaka, J. Peng, S. Purkey, D. Roemmich, K. Sato, A. Savita, A. Schweiger, A. Shepherd, S. I. Seneviratne, L. Simons, D. A. Slater, T. Slater, A. K. Steiner, T. Suga, T. Szekely, W. Thiery, M.-L. Timmermans, I. Vanderkelen, S. E. Wjiffels, T. Wu, and M. Zemp
- Subjects
Environmental sciences ,GE1-350 ,Geology ,QE1-996.5 - Abstract
The Earth climate system is out of energy balance, and heat has accumulated continuously over the past decades, warming the ocean, the land, the cryosphere, and the atmosphere. According to the Sixth Assessment Report by Working Group I of the Intergovernmental Panel on Climate Change, this planetary warming over multiple decades is human-driven and results in unprecedented and committed changes to the Earth system, with adverse impacts for ecosystems and human systems. The Earth heat inventory provides a measure of the Earth energy imbalance (EEI) and allows for quantifying how much heat has accumulated in the Earth system, as well as where the heat is stored. Here we show that the Earth system has continued to accumulate heat, with 381±61 ZJ accumulated from 1971 to 2020. This is equivalent to a heating rate (i.e., the EEI) of 0.48±0.1 W m−2. The majority, about 89 %, of this heat is stored in the ocean, followed by about 6 % on land, 1 % in the atmosphere, and about 4 % available for melting the cryosphere. Over the most recent period (2006–2020), the EEI amounts to 0.76±0.2 W m−2. The Earth energy imbalance is the most fundamental global climate indicator that the scientific community and the public can use as the measure of how well the world is doing in the task of bringing anthropogenic climate change under control. Moreover, this indicator is highly complementary to other established ones like global mean surface temperature as it represents a robust measure of the rate of climate change and its future commitment. We call for an implementation of the Earth energy imbalance into the Paris Agreement's Global Stocktake based on best available science. The Earth heat inventory in this study, updated from von Schuckmann et al. (2020), is underpinned by worldwide multidisciplinary collaboration and demonstrates the critical importance of concerted international efforts for climate change monitoring and community-based recommendations and we also call for urgently needed actions for enabling continuity, archiving, rescuing, and calibrating efforts to assure improved and long-term monitoring capacity of the global climate observing system. The data for the Earth heat inventory are publicly available, and more details are provided in Table 4.
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- 2023
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42. Which glaciers are the largest in the world?
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Ann Windnagel, Regine Hock, Fabien Maussion, Frank Paul, Philipp Rastner, Bruce Raup, and Michael Zemp
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Glacier delineation ,glacier mapping ,glacier monitoring ,remote sensing ,Environmental sciences ,GE1-350 ,Meteorology. Climatology ,QC851-999 - Abstract
Glacier monitoring has been internationally coordinated for more than 125 years. Despite this long history, there is no authoritative answer to the popular question: ‘Which glaciers are the largest in the world?’ Here, we present the first systematic assessment of this question and identify the largest glaciers in the world – distinct from the two ice sheets in Greenland and Antarctica but including the glaciers on the Antarctic Peninsula. We identify the largest glaciers in two domains: on each of the seven geographical continents and in the 19 first-order glacier regions defined by the Global Terrestrial Network for Glaciers. Ranking glaciers by area is non-trivial. It depends on how a glacier is defined and mapped and also requires differentiating between a glacier and a glacier complex, i.e. glaciers that meet at ice divides such as ice caps and icefields. It also depends on the availability of a homogenized global glacier inventory. Using separate rankings for glaciers and glacier complexes, we find that the largest glacier complexes have areas on the order of tens of thousands of square kilometers whereas the largest glaciers are several thousands of square kilometers. The world's largest glaciers and glacier complexes are located in the Antarctic, Arctic and Patagonia.
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- 2023
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43. Cytoreductive Nephrectomy Following Immune Checkpoint Inhibitor Therapy Is Safe and Facilitates Treatment-free Intervals
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Daniel D. Shapiro, Jose A. Karam, Logan Zemp, Viraj A. Master, Wade J. Sexton, Ali Ghasemzadeh, Benjamin N. Schmeusser, Facundo Davaro, Taylor Peak, Dattatraya Patil, Surena Matin, Philippe E. Spiess, and E. Jason Abel
- Subjects
Cytoreductive nephrectomy ,Immune checkpoint inhibitor ,Renal cell carcinoma ,Complications ,Diseases of the genitourinary system. Urology ,RC870-923 ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Patients with metastatic renal cell cancer (mRCC) who respond to upfront immune checkpoint inhibitor (ICI) combination therapies may be treated with cytoreductive nephrectomy (CN) to remove radiographically viable primary tumors. Early data for post-ICI CN suggested that ICI therapies induce desmoplastic reactions in some patients, increasing the risk of surgical complications and perioperative mortality. We evaluated perioperative outcomes for 75 consecutive patients treated with post-ICI CN at four institutions from 2017 to 2022. Our cohort of 75 patients had minimal or no residual metastatic disease but radiographically enhancing primary tumors after ICI and were treated with CN. Intraoperative complications were identified in 3/75 patients (4%) and 90-d postoperative complications in 19/75 (25%), including two patients (3%) with high-grade (Clavien ≥III) complications. One patient was readmitted within 30 d. No patients died within 90 d after surgery. Viable tumor was present in all but one specimen. Approximately half of the patients (36/75, 48%) remained off systemic therapy at last follow-up. These data suggest that CN following ICI therapy is safe and associated with low rates of major postoperative complications in appropriately selected patients at experienced centers. Post-ICI CN may facilitate observation without additional systemic therapy in patients without significant residual metastatic disease. Patient summary: Current first-line treatment for patients with kidney cancer that has spread to other sites (metastatic cancer) is immunotherapy. For cases in which metastatic sites respond to this therapy but primary tumor is still detected in the kidney, surgical treatment of the tumor is feasible and has a low rate of complications, and may delay the need for further chemotherapy.
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- 2023
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44. Survival Benefits of Adjuvant Chemotherapy for Positive Soft Tissue Surgical Margins Following Radical Cystectomy in Bladder Cancer with Extravesical Extension
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Prithvi B. Murthy, Shreyas Naidu, Facundo Davaro, Philippe E. Spiess, Logan Zemp, Michael Poch, Rohit Jain, Aram Vosoughi, G. Daniel Grass, Alice Yu, Wade J. Sexton, Scott M. Gilbert, and Roger Li
- Subjects
radical cystectomy ,adjuvant therapy ,surgical margins ,multi-modal therapy ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Introduction and Objective: Muscle invasive bladder cancer with extravesical extension is an aggressive disease entity that requires multimodal therapy. The benefits of adjuvant chemotherapy (AC) in patients with a positive soft-tissue surgical margin (STSM), however, are relatively unknown due to exclusion of this population in randomized controlled trials of AC. We sought to define survival benefits in this patient population through our institutional bladder cancer database. Methods: Retrospective review of all patients undergoing radical cystectomy for urothelial carcinoma of the bladder from 2004–2020 with ≥pT3b disease irrespective of neoadjuvant chemotherapy (NAC) use was conducted. Progression-free survival (PFS) and overall survival (OS) estimates were obtained using the Kaplan-Meier method with log-rank test, and the Cox-proportional hazards model was used to identify predictors of improved PFS and OS. AC was defined by any chemotherapy use within 90 days of cystectomy, regardless of STSM status. Results: 476 patients with pT3b disease or worse were identified. Median follow-up was 12.3 months. An amount of 21% of patients were treated with AC. An amount of 24% of patients had positive STSM. Median OS for patients with positive STSM was 8.4 months [95% CI 7–11.5] and 18.3 months [95% CI 15.6–20.8] (p < 0.001) for patients with negative STSM. In the overall cohort, positive STSM (HR 1.93, 95% CI 1.45–2.57, p < 0.001), AC use (HR 0.68, 95% CI 0.51–0.90, p = 0.007), and pN1–3 disease (HR 1.47, 95% CI 1.16–1.87, p = 0.002) were independent predictors of OS when adjusted for performance status, pT-stage, and neoadjuvant chemotherapy use. In patients with positive STSM, median survival was seven months [95% CI 5.2–8.4] without AC, compared to 16.2 months [95% CI 11.5–52.5] with AC (p = 0.0038). For patients with negative STSM, median survival was 17.4 months [95% CI 14–20.1] without AC compared to 22.3 months [95% CI 17.2–36.9] with AC (p = 0.23). In patients with positive STSM, AC use was the only factor associated with an OS benefit with a HR of 0.41 (95% CI 0.21–0.78, p = 0.007). In patients with negative STSM, pT4 and pN1–3 disease were the only factors associated with worse overall survival with a HR of 1.32 (95% CI 1.00–1.74, p = 0.050) and 1.97 (95% CI 1.49–2.60, p < 0.001), respectively. Conclusions: Administration of adjuvant chemotherapy is of particular benefit in patients with positive STSM following radical cystectomy for gross extravesical disease. Positive STSM may be a representative of “early metastatic” or micrometastatic disease.
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- 2023
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45. Investigating mechanisms of laser pulse-induced reflectivity modulations in photoacoustic remote sensing with a 10 million frames-per-second camera
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Nathaniel J. M. Haven, Matthew T. Martell, Haoyang Li, James D. Hogan, and Roger J. Zemp
- Subjects
Medicine ,Science - Abstract
Abstract Photoacoustic remote sensing has been recently developed as an all-optical imaging modality capable of imaging a variety of endogenous contrast agents label-free. Initially predicted laser pulse-induced refractive index perturbation-based interrogation beam reflectivity modulations have been found to be orders of magnitude smaller than those typically observed experimentally. In this report we utilize a 10 million frames-per-second camera to further investigate these predicted reflectivity modulations, while also exploring other potential mechanisms of laser pulse-induced reflectivity modulations. Laser-induced motion is demonstrated both laterally for gold wires suspended and submerged in air and water, respectively, and carbon fibers submerged in water, and axial motion is observed in gold wires submerged in a depth gradient of intralipid solution. This laser-induced sample motion is anticipated to cause reflectivity modulations local to the interrogation beam profile in microscopy set-ups. Non-motion-based maximum intensity modulations of 3% are also observed in gold wires submerged in water, indicating the presence of the originally predicted reflectivity modulations. Overall, these observations are important as they provide a widefield view of laser-pulse interactions unavailable in previous point scanning-based photoacoustic remote sensing microscopy configurations, where observed mechanisms occur on time-scales orders of magnitude faster than equivalent field of view point scanning capabilities.
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- 2023
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46. ‘I owe it to the animals’: The bidirectionality of Swiss alpine farmers' relational values
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Mollie Chapman and Anna Deplazes‐Zemp
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Alpine livestock farmers ,environmental ethics ,farmer motivation ,human wellbeing ,multiple values of nature ,relational values ,Human ecology. Anthropogeography ,GF1-900 ,Ecology ,QH540-549.5 - Abstract
Abstract Relational values have recently been proposed as a concept to expand our understanding of environmental values from the categories previously dominating the discourse: instrumental (nature for people's sake) and intrinsic values (nature for its own sake). Empirical and conceptual research on relational values has so far focused on the content of relational values or their relationship to other kinds of values. In this paper, we fill a key gap in understanding exactly what relational values are and how they work; we call this the ‘syntax’ of relational values. We do so by applying the Syntax of Environmental Values Framework, which describes relational values as bidirectional, expressed by genuine respect and care on the one hand and an eudaimonic contribution to wellbeing on the other. We developed a novel interview protocol which we applied in semistructured interviews with Swiss alpine farmers. We examine how both of these directions are manifested in farmers' relational values. Our results showed how the bidirectionality manifests in relational values of alpine farmers. Specifically, we identified three components of each directionality. The intrinsic element of relational values was constituted by: an attitude of respect, attention to the relationship and practices of care. The instrumental element of relational values was constituted by: emotional and experiential contributions for the valuer, satisfaction and joy in the relationship, and practical contributions to the activities associated with the relationship (e.g. farm management). We further elaborate on the conditions required to sustain relational values, including physical, emotional and sociopolitical conditions. These results informed an elaborated conceptual framework of relational values, and environmental valuing more generally. While specifically derived from our dataset, we believe our conclusions could directly or in a modified form, apply to diverse cases of relational valuing. In sum, this paper offers a concrete step towards better characterizing, distinguishing and applying the relational values concept. Read the free Plain Language Summary for this article on the Journal blog.
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- 2023
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47. Complete Response of Primary Penile Tumor With Induction Paclitaxel, Ifosfamide, and Cisplatin (TIP) Chemotherapy
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Logan Zemp, Jad Chahoud, Peter A. Johnstone, and Philippe E. Spiess
- Subjects
penile cancer ,chemotherapy ,radiotherapy ,interdisciplinary communication ,Diseases of the genitourinary system. Urology ,RC870-923 - Abstract
None.
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- 2023
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48. Outbreak investigation including molecular characterization of community associated methicillin-resistant Staphylococcus aureus in a primary and secondary school in Eastern Switzerland
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Frederike Waldeck, Salome N. Seiffert, Susanne Manser, Danuta Zemp, Angela Walt, Christoph Berger, Werner C. Albrich, Matthias Schlegel, Tim Roloff, Adrian Egli, Oliver Nolte, and Christian R. Kahlert
- Subjects
Medicine ,Science - Abstract
Abstract At our tertiary children’s hospital, infections with newly detected methicillin-resistant Staphylococcus aureus (MRSA) among children attending primary (age 6–12 years) and secondary school (age 13–16 years) nearly doubled in 2018 compared to previous years. This observation initiated an epidemiological outbreak investigation including phenotypic (susceptibility testing) and genotypic (whole genome sequencing) characterization of the isolates. In addition, a cross-sectional study was conducted to determine source of the outbreak, colonization frequency and to identify risk factors for transmission using a questionnaire. As a result, 49 individuals were detected with 57 corresponding isolates. Based on the case definition combined with whole genome sequencing, a core cluster was identified that shared common genetic features and a similar antimicrobial susceptibility pattern (efflux-mediated macrolide resistance, tetracycline susceptibility along with presence of Panton-Valentine leukocidin). Epidemiologic evaluation identified a distinct school as a common risk factor. However, the source of the clustered infections within that school could not be further specified. No further cases could be detected after decolonization of infected and colonized children.
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- 2022
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49. Ribosome biogenesis factors—from names to functions
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Dörner, Kerstin, Ruggeri, Chiara, Zemp, Ivo, and Kutay, Ulrike
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- 2023
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50. Outperforming piezoelectric ultrasonics with high-reliability single-membrane CMUT array elements
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Eric B. Dew, Afshin Kashani Ilkhechi, Mohammad Maadi, Nathaniel J. M. Haven, and Roger J. Zemp
- Subjects
Technology ,Engineering (General). Civil engineering (General) ,TA1-2040 - Abstract
Abstract It has long been hypothesized that capacitive micromachined ultrasound transducers (CMUTs) could potentially outperform piezoelectric technologies. However, challenges with dielectric charging, operational hysteresis, and transmit sensitivity have stood as obstacles to these performance outcomes. In this paper, we introduce key architectural features to enable high-reliability CMUTs with enhanced performance. Typically, a CMUT element in an array is designed with an ensemble of smaller membranes oscillating together to transmit or detect ultrasound waves. However, this approach can lead to unreliable behavior and suboptimal transmit performance if these smaller membranes oscillate out of phase or collapse at different voltages. In this work, we designed CMUT array elements composed of a single long rectangular membrane, with the aim of improving the output pressure and electromechanical efficiency. We compare the performance of three different modifications of this architecture: traditional contiguous dielectric, isolated isolation post (IIP), and insulated electrode-post (EP) CMUTs. EPs were designed to improve performance while also imparting robustness to charging and minimization of hysteresis. To fabricate these devices, a wafer-bonding process was developed with near-100% bonding yield. EP CMUT elements achieved electromechanical efficiency values as high as 0.95, higher than values reported with either piezoelectric transducers or previous CMUT architectures. Moreover, all investigated CMUT architectures exhibited transmit efficiency 2–3 times greater than published CMUT or piezoelectric transducer elements in the 1.5–2.0 MHz range. The EP and IIP CMUTs demonstrated considerable charging robustness, demonstrating minimal charging over 500,000 collapse-snap-back actuation cycles while also mitigating hysteresis. Our proposed approach offers significant promise for future ultrasonic applications.
- Published
- 2022
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