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End date: 2022 × Start date: 2022 × DDC: 500 × Type: Article × Subject: human ×

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Now showing 1 - 10 of 22
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    Improving Accuracy and Temporal Resolution of Learning Curve Estimation for within- and across-Session Analysis
    (San Francisco, California, US : PLOS, 2016) Deliano, Matthias; Tabelow, Karsten; König, Reinhard; Polzehl, Jörg
    Estimation of learning curves is ubiquitously based on proportions of correct responses within moving trial windows. Thereby, it is tacitly assumed that learning performance is constant within the moving windows, which, however, is often not the case. In the present study we demonstrate that violations of this assumption lead to systematic errors in the analysis of learning curves, and we explored the dependency of these errors on window size, different statistical models, and learning phase. To reduce these errors in the analysis of single-subject data as well as on the population level, we propose adequate statistical methods for the estimation of learning curves and the construction of confidence intervals, trial by trial. Applied to data from an avoidance learning experiment with rodents, these methods revealed performance changes occurring at multiple time scales within and across training sessions which were otherwise obscured in the conventional analysis. Our work shows that the proper assessment of the behavioral dynamics of learning at high temporal resolution can shed new light on specific learning processes, and, thus, allows to refine existing learning concepts. It further disambiguates the interpretation of neurophysiological signal changes recorded during training in relation to learning.
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    Monoclonal Antibodies 13A4 and AC133 Do Not Recognize the Canine Ortholog of Mouse and Human Stem Cell Antigen Prominin-1 (CD133)
    (San Francisco, California, US : PLOS, 2016) Thamm, Kristina; Graupner, Sylvi; Werner, Carsten; Huttner, Wieland B.; Corbeil, Denis; Nabi, Ivan R
    The pentaspan membrane glycoprotein prominin-1 (CD133) is widely used in medicine as a cell surface marker of stem and cancer stem cells. It has opened new avenues in stem cell-based regenerative therapy and oncology. This molecule is largely used with human samples or the mouse model, and consequently most biological tools including antibodies are directed against human and murine prominin-1. Although the general structure of prominin-1 including its membrane topology is conserved throughout the animal kingdom, its primary sequence is poorly conserved. Thus, it is unclear if anti-human and -mouse prominin-1 antibodies cross-react with their orthologs in other species, especially dog. Answering this issue is imperative in light of the growing number of studies using canine prominin-1 as an antigenic marker. Here, we address this issue by cloning the canine prominin-1 and use its overexpression as a green fluorescent protein fusion protein in Madin-Darby canine kidney cells to determine its immunoreactivity with antibodies against human or mouse prominin-1. We used immunocytochemistry, flow cytometry and immunoblotting techniques and surprisingly found no cross-species immunoreactivity. These results raise some caution in data interpretation when anti-prominin-1 antibodies are used in interspecies studies.
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    Scanning electron microscopy preparation of the cellular actin cortex: A quantitative comparison between critical point drying and hexamethyldisilazane drying
    (San Francisco, California, US : PLOS, 2021) Schu, Moritz; Terriac, Emmanuel; Koch, Marcus; Paschke, Stephan; Lautenschläger, Franziska; Flormann, Daniel A.D.
    The cellular cortex is an approximately 200-nm-thick actin network that lies just beneath the cell membrane. It is responsible for the mechanical properties of cells, and as such, it is involved in many cellular processes, including cell migration and cellular interactions with the environment. To develop a clear view of this dense structure, high-resolution imaging is essential. As one such technique, electron microscopy, involves complex sample preparation procedures. The final drying of these samples has significant influence on potential artifacts, like cell shrinkage and the formation of artifactual holes in the actin cortex. In this study, we compared the three most used final sample drying procedures: critical-point drying (CPD), CPD with lens tissue (CPD-LT), and hexamethyldisilazane drying. We show that both hexamethyldisilazane and CPD-LT lead to fewer artifactual mesh holes within the actin cortex than CPD. Moreover, CPD-LT leads to significant reduction in cell height compared to hexamethyldisilazane and CPD. We conclude that the final drying procedure should be chosen according to the reduction in cell height, and so CPD-LT, or according to the spatial separation of the single layers of the actin cortex, and so hexamethyldisilazane.
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    Near-real-time monitoring of global CO2 emissions reveals the effects of the COVID-19 pandemic
    ([London] : Nature Publishing Group UK, 2020) Liu, Zhu; Ciais, Philippe; Deng, Zhu; Lei, Ruixue; Davis, Steven J.; Feng, Sha; Zheng, Bo; Cui, Duo; Dou, Xinyu; Zhu, Biqing; Guo, Rui; Ke, Piyu; Sun, Taochun; Lu, Chenxi; He, Pan; Wang, Yuan; Yue, Xu; Wang, Yilong; Lei, Yadong; Zhou, Hao; Cai, Zhaonan; Wu, Yuhui; Guo, Runtao; Han, Tingxuan; Xue, Jinjun; Boucher, Olivier; Boucher, Eulalie; Chevallier, Frédéric; Tanaka, Katsumasa; Wei, Yiming; Zhong, Haiwang; Kang, Chongqing; Zhang, Ning; Chen, Bin; Xi, Fengming; Liu, Miaomiao; Bréon, François-Marie; Lu, Yonglong; Zhang, Qiang; Guan, Dabo; Gong, Peng; Kammen, Daniel M.; He, Kebin; Schellnhuber, Hans Joachim
    The COVID-19 pandemic is impacting human activities, and in turn energy use and carbon dioxide (CO2) emissions. Here we present daily estimates of country-level CO2 emissions for different sectors based on near-real-time activity data. The key result is an abrupt 8.8% decrease in global CO2 emissions (−1551 Mt CO2) in the first half of 2020 compared to the same period in 2019. The magnitude of this decrease is larger than during previous economic downturns or World War II. The timing of emissions decreases corresponds to lockdown measures in each country. By July 1st, the pandemic’s effects on global emissions diminished as lockdown restrictions relaxed and some economic activities restarted, especially in China and several European countries, but substantial differences persist between countries, with continuing emission declines in the U.S. where coronavirus cases are still increasing substantially.
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    State-of-the-art global models underestimate impacts from climate extremes
    ([London] : Nature Publishing Group UK, 2019) Schewe, Jacob; Gosling, Simon N.; Reyer, Christopher; Zhao, Fang; Ciais, Philippe; Elliott, Joshua; Francois, Louis; Huber, Veronika; Lotze, Heike K.; Seneviratne, Sonia I.; van Vliet, Michelle T. H.; Vautard, Robert; Wada, Yoshihide; Breuer, Lutz; Büchner, Matthias; Carozza, David A.; Chang, Jinfeng; Coll, Marta; Deryng, Delphine; de Wit, Allard; Eddy, Tyler D.; Folberth, Christian; Frieler, Katja; Friend, Andrew D.; Gerten, Dieter; Gudmundsson, Lukas; Hanasaki, Naota; Ito, Akihiko; Khabarov, Nikolay; Kim, Hyungjun; Lawrence, Peter; Morfopoulos, Catherine; Müller, Christoph; Müller Schmied, Hannes; Orth, René; Ostberg, Sebastian; Pokhrel, Yadu; Pugh, Thomas A. M.; Sakurai, Gen; Satoh, Yusuke; Schmid, Erwin; Stacke, Tobias; Steenbeek, Jeroen; Steinkamp, Jörg; Tang, Qiuhong; Tian, Hanqin; Tittensor, Derek P.; Volkholz, Jan; Wang, Xuhui; Warszawski, Lila
    Global impact models represent process-level understanding of how natural and human systems may be affected by climate change. Their projections are used in integrated assessments of climate change. Here we test, for the first time, systematically across many important systems, how well such impact models capture the impacts of extreme climate conditions. Using the 2003 European heat wave and drought as a historical analogue for comparable events in the future, we find that a majority of models underestimate the extremeness of impacts in important sectors such as agriculture, terrestrial ecosystems, and heat-related human mortality, while impacts on water resources and hydropower are overestimated in some river basins; and the spread across models is often large. This has important implications for economic assessments of climate change impacts that rely on these models. It also means that societal risks from future extreme events may be greater than previously thought.
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    Computational design and optimization of electro-physiological sensors
    ([London] : Nature Publishing Group UK, 2021) Nittala, Aditya Shekhar; Karrenbauer, Andreas; Khan, Arshad; Kraus, Tobias; Steimle, Jürgen
    Electro-physiological sensing devices are becoming increasingly common in diverse applications. However, designing such sensors in compact form factors and for high-quality signal acquisition is a challenging task even for experts, is typically done using heuristics, and requires extensive training. Our work proposes a computational approach for designing multi-modal electro-physiological sensors. By employing an optimization-based approach alongside an integrated predictive model for multiple modalities, compact sensors can be created which offer an optimal trade-off between high signal quality and small device size. The task is assisted by a graphical tool that allows to easily specify design preferences and to visually analyze the generated designs in real-time, enabling designer-in-the-loop optimization. Experimental results show high quantitative agreement between the prediction of the optimizer and experimentally collected physiological data. They demonstrate that generated designs can achieve an optimal balance between the size of the sensor and its signal acquisition capability, outperforming expert generated solutions.
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    Environmental co-benefits and adverse side-effects of alternative power sector decarbonization strategies
    ([London] : Nature Publishing Group UK, 2019) Luderer, Gunnar; Pehl, Michaja; Arvesen, Anders; Gibon, Thomas; Bodirsky, Benjamin L.; de Boer, Harmen Sytze; Fricko, Oliver; Hejazi, Mohamad; Humpenöder, Florian; Iyer, Gokul; Mima, Silvana; Mouratiadou, Ioanna; Pietzcker, Robert C.; Popp, Alexander; van den Berg, Maarten; van Vuuren, Detlef; Hertwich, Edgar G.
    A rapid and deep decarbonization of power supply worldwide is required to limit global warming to well below 2 °C. Beyond greenhouse gas emissions, the power sector is also responsible for numerous other environmental impacts. Here we combine scenarios from integrated assessment models with a forward-looking life-cycle assessment to explore how alternative technology choices in power sector decarbonization pathways compare in terms of non-climate environmental impacts at the system level. While all decarbonization pathways yield major environmental co-benefits, we find that the scale of co-benefits as well as profiles of adverse side-effects depend strongly on technology choice. Mitigation scenarios focusing on wind and solar power are more effective in reducing human health impacts compared to those with low renewable energy, while inducing a more pronounced shift away from fossil and toward mineral resource depletion. Conversely, non-climate ecosystem damages are highly uncertain but tend to increase, chiefly due to land requirements for bioenergy.
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    Key determinants of global land-use projections
    ([London] : Nature Publishing Group UK, 2019) Stehfest, Elke; van Zeist, Willem-Jan; Valin, Hugo; Havlik, Petr; Popp, Alexander; Kyle, Page; Tabeau, Andrzej; Mason-D’Croz, Daniel; Hasegawa, Tomoko; Bodirsky, Benjamin L.; Calvin, Katherine; Doelman, Jonathan C.; Fujimori, Shinichiro; Humpenöder, Florian; Lotze-Campen, Hermann; van Meijl, Hans; Wiebe, Keith
    Land use is at the core of various sustainable development goals. Long-term climate foresight studies have structured their recent analyses around five socio-economic pathways (SSPs), with consistent storylines of future macroeconomic and societal developments; however, model quantification of these scenarios shows substantial heterogeneity in land-use projections. Here we build on a recently developed sensitivity approach to identify how future land use depends on six distinct socio-economic drivers (population, wealth, consumption preferences, agricultural productivity, land-use regulation, and trade) and their interactions. Spread across models arises mostly from diverging sensitivities to long-term drivers and from various representations of land-use regulation and trade, calling for reconciliation efforts and more empirical research. Most influential determinants for future cropland and pasture extent are population and agricultural efficiency. Furthermore, land-use regulation and consumption changes can play a key role in reducing both land use and food-security risks, and need to be central elements in sustainable development strategies.
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    Guidance of mesenchymal stem cells on fibronectin structured hydrogel films
    (San Francisco, California, US : PLOS, 2014) Kasten, Annika; Naser, Tamara; Brüllhoff, Kristina; Fiedler, Jörg; Müller, Petra; Möller, Martin; Rychly, Joachim; Groll, Jürgen; Brenner, Rolf E.; Engler, Adam J.
    Designing of implant surfaces using a suitable ligand for cell adhesion to stimulate specific biological responses of stem cells will boost the application of regenerative implants. For example, materials that facilitate rapid and guided migration of stem cells would promote tissue regeneration. When seeded on fibronectin (FN) that was homogeneously immmobilized to NCO-sP(EO-stat-PO), which otherwise prevents protein binding and cell adhesion, human mesenchymal stem cells (MSC) revealed a faster migration, increased spreading and a more rapid organization of different cellular components for cell adhesion on fibronectin than on a glass surface. To further explore, how a structural organization of FN controls the behavior of MSC, adhesive lines of FN with varying width between 10 µm and 80 µm and spacings between 5 µm and 20 µm that did not allow cell adhesion were generated. In dependance on both line width and gaps, cells formed adjacent cell contacts, were individually organized in lines, or bridged the lines. With decreasing sizes of FN lines, speed and directionality of cell migration increased, which correlated with organization of the actin cytoskeleton, size and shape of the nuclei as well as of focal adhesions. Together, defined FN lines and gaps enabled a fine tuning of the structural organization of cellular components and migration. Microstructured adhesive substrates can mimic the extracellular matrix in vivo and stimulate cellular mechanisms which play a role in tissue regeneration.
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    ColiCoords: A Python package for the analysis of bacterial fluorescence microscopy data
    (San Francisco, California, US : PLOS, 2019) Smit, Jochem H.; Li, Yichen; Warszawik, Eliza M.; Herrmann, Andreas; Cordes, Thorben; Gilestro, Giorgio F
    Single-molecule fluorescence microscopy studies of bacteria provide unique insights into the mechanisms of cellular processes and protein machineries in ways that are unrivalled by any other technique. With the cost of microscopes dropping and the availability of fully automated microscopes, the volume of microscopy data produced has increased tremendously. These developments have moved the bottleneck of throughput from image acquisition and sample preparation to data analysis. Furthermore, requirements for analysis procedures have become more stringent given the demand of various journals to make data and analysis procedures available. To address these issues we have developed a new data analysis package for analysis of fluorescence microscopy data from rod-like cells. Our software ColiCoords structures microscopy data at the single-cell level and implements a coordinate system describing each cell. This allows for the transformation of Cartesian coordinates from transmission light and fluorescence images and single-molecule localization microscopy (SMLM) data to cellular coordinates. Using this transformation, many cells can be combined to increase the statistical power of fluorescence microscopy datasets of any kind. ColiCoords is open source, implemented in the programming language Python, and is extensively documented. This allows for modifications for specific needs or to inspect and publish data analysis procedures. By providing a format that allows for easy sharing of code and associated data, we intend to promote open and reproducible research. The source code and documentation can be found via the project’s GitHub page.