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986 results for “exchange”
Exploring the interaction of a curcumin azobioisostere with Abeta42 dimers using replica exchange molecular dynamics simulations
<p>Structural data and parameters relative to the evaluation of the interaction of an anti aggregating azobioisostere compound with the full-length Aβ42 peptide by replica-exchange molecular dynamics (REMD) simulations. Two different force fields (Amber and CHARMM) were used to simulate the azobioisostere-Abeta42 (AZ-Ab42) complex in a monomeric and dimeric assembly.</p> <p>A brief description of the shared output data is reported below:</p> <p><strong>1. Amber and CHARMM-adapted parameters for the simulated azobioisostere (AZ) compound.</strong></p> <p><strong>2. Modified version of the CHARMM36m FF - (CHARMM36mW)</strong></p> <p><strong>3. Starting (equilibrated) structures (first 5 T-replicas) for REMD on each of the following three systems (PDB): </strong></p> <ul> <li>Amber: AZ-Ab42 (monomeric ensemble): <strong>Repl.0 </strong>(315.0 K), <strong>Repl.1</strong> (316.7 K), <strong>Repl.2</strong> (318.4 K), <strong>Repl.3</strong> (320.1 K), <strong>Repl.4</strong> (321.8 K) </li> <li>Amber: AZ-Ab42 (dimeric ensemble): <strong>Repl.0</strong> (315.0 K), <strong>Repl.1</strong> (316.0 K), <strong>Repl.2</strong> (317.0 K), <strong>Repl.3</strong> (318.0 K), <strong>Repl.4</strong> (319.1 K) </li> <li>CHARMM: AZ-Ab42 (dimeric ensemble): <strong>Repl.0</strong> (315.0 K), <strong>Repl.1</strong> (316.0 K), <strong>Repl.2</strong> (317.0 K), <strong>Repl.3 </strong>(318.0 K), <strong>Repl.4</strong> (319.1 K)</li> </ul> <p><strong>4. Most populated clusters for the three simulated systems (PDB):</strong></p> <ul> <li>Amber AZ-Ab42 (monomeric ensemble): <strong>7</strong> clusters (<strong>Cl.0</strong>: 12.4%, <strong>Cl.1</strong>: 10.1%, <strong>Cl.2</strong>: 9.8%, <strong>Cl.3</strong>: 5.4%, <strong>Cl.4</strong>: 3.7%,<strong> Cl.5</strong>: 3.6%, <strong>Cl.6</strong>: 2.0%) </li> <li>Amber AZ-Ab42 (dimeric ensemble): <strong>5</strong> clusters (<strong>Cl.0</strong>: 7.1%, <strong>Cl.1</strong>: 4.3%, <strong>Cl.2</strong>: 3.5%,<strong> Cl.3</strong>: 3.2%, <strong>Cl.4</strong>: 2.4%) </li> <li>CHARMM: AZ-Ab42 (dimeric ensemble): <strong>3</strong> clusters (<strong>Cl.0</strong>: 4.7%, <strong>Cl.1</strong>: 4.6%, <strong>Cl.2</strong>: 2.5%) </li> </ul>
Dirt cheap: An experimental test of controls on resource exchange in an ectomycorrhizal symbiosis
<p>1. To distinguish among hypotheses on the importance of resource-exchange ratios in outcomes of mutualisms, we measured resource (carbon (C), nitrogen (N), and phosphorus (P)) transfers, and their ratios, between Pinus taeda seedlings and two ectomycorrhizal (EM) fungal species, Rhizopogon roseolus and Pisolithus arhizus in a laboratory experiment.</p> <p>2. We evaluated how ambient light affected those resource fluxes and ratios over 3 time periods (10, 20, and 30 weeks), and the consequences for plant and fungal biomass accrual, in environmental chambers.</p> <p>3. Our results suggest that light availability is an important factor driving absolute fluxes of N, P, and C, but not exchange ratios, although its effects vary among EM fungal species. Declines in N:C and P:C exchange ratios over time, as soil nutrient availability likely declined, were consistent with predictions of biological market models. Absolute transfer of P was an important predictor of both plant and fungal biomass, consistent with the excess resource exchange hypothesis, and N transfer to plants was positively associated with fungal biomass.</p> <p>4. Altogether, light effects on resource fluxes indicated mixed support for various theoretical frameworks, while results on biomass accrual better supported the excess resource exchange hypothesis, although among-species variability is in need of further characterization.</p>
Dataset supporting publication: Design Framework and Laboratory Experiments for Helix and Slinky Type Ground Source Heat Exchangers for Retrofitting Projects
<p>Dataset supporting publication: “Design Framework and Laboratory Experiments for Helix and Slinky Type Ground Source Heat Exchangers for Retrofitting Projects” (publication available for download: <a href="https://zenodo.org/record/7436458">GEOFIT Zenodo</a>).</p> <p>The focus of the experimental work was on shallow spiral geothermal heat exchanger configurations. Real-scale experiments were carried out for vertically oriented spiral collectors (helix) in sand and soil. One objective was to develop a measurement concept in laboratory environment to create a framework for a validated database. This database serves as the basis for further and new development of engineering design tools. To achieve the highest possible data-point density in the observed environment, temperature sensors and a fiber-optic temperature measurement system (DTS) were used. Soil probes were taken in situ before and after the measurements and analyzed at a thermophysical laboratory to determine material properties. The heat flow was controlled by an electric heating cable, which was installed in the form of a spiral-shaped heat exchanger in a 1 m³ container. To guarantee constant boundary conditions, the measurements were carried out in a climate chamber at a defined ambient temperature. The evaluation of the transient response behavior is spatially resolved. The results are coordinate-based temperature points, which describe temperature gradients in all axes of the container over time, which are combined with known soil properties. The collected data was used to develop computational fluid dynamic (CFD) models, which are used to extend the variety of geometry and soil configurations for developing new design tools.</p>
Dataset associated with publication "Direct observation of coherence transfer and rotational-to-vibrational energy exchange in optically centrifuged CO2 super-rotors" to be published in Nature Communications
<p>This dataset contains all data to compose figures in the associated manuscript. Some of the images are presented in MatLab .mat files. If a different format is needed, please contact the corresponding author. </p>
Data for "Symbiotic nutrient exchange enhances the long-term survival of cassiosomes, the autonomous stinging-cell structures of Cassiopea"
<p>Raw data linked to the publication "Symbiotic nutrient exchange enhances the long-term survival of cassiosomes, the autonomous stinging-cell structures of <em>Cassiopea".</em> NanoSIMS data and data from the survival experiments are available as individual tabs in the excel file.</p>
Visualization of adiabatic gas-liquid flow in a cross-corrugated plate heat exchanger channel: Part 1 - Original photographs, uniform two-phase distribution
<p>These measurement data are obtained and analyzed as part of a research project on adiabatic gas-liquid flow in a cross-corrugated plate heat exchanger channel. (See list of publications below). <br> The following Creative Commons license applies to the research data (images and measurement values) uploaded to the online repositories:<br> CC-BY 4.0<br> Author: Susanne Buscher</p> <p>The measurement data is published in 2 data sets: </p> <p>Data set I: Original image data (4 parts): <br> - uniform gas injection, part 1: https://doi.org/10.5281/zenodo.7985771; <br> - uniform gas injection, part 2: https://doi.org/10.5281/zenodo.7986374; <br> - uniform gas injection, part 3: https://doi.org/10.5281/zenodo.7986384; <br> - non-uniform gas injection (part 4): https://doi.org/10.5281/zenodo.8067163<br> This data set contains the original photographs of the two-phase flow in the cross-corrugated channel obtained with a high-resolution camera. In addition, the corresponding experimental parameters and flow patterns (for part 1-3 only) are included in the CSV files.<br> For uniform and non-uniform gas injection, respectively, the images were stored in sequentially numbered folders. The numbers of the folders correspond to the numbers of the measurement points listed in the attached CSV files with the associated experimental parameters.<br> The image folders are grouped in ZIP archives. Each ZIP archive contains the single-phase reference images which can be used for the two-phase images to conduct background subtraction, because the lighting conditions are equal for all images in one ZIP archive. </p> <p>Data set II: Measurement values and processed image data: <br> - https://doi.org/10.14279/depositonce-17868; <br> This data set contains all measurement values and calculated results of all measurement points in the Excel and CSV files (e.g. pressure drop, volumetric flow rates, void fraction, measurement uncertainties).<br> In addition, the results of the image processing algorithm are included in the Excel and CSV files (e.g. mean bubble diameter, maximum bubble diameter, local film flow ratio, extent of the two-phase distribution across the channel width, measurement uncertainties).<br> The image folders contain the pre-processed images which were the input to the digital image analysis (i.e. the aligned and cropped image section of the channel without inlet, outlet, and peripheral regions and after subtraction of the image background), and the post-processed images visualizing the output of the digital image analysis for this image (i.e. detected objects are inserted as colored regions in the image section; the meaning of colors was explained in the publications of 2022 and 2023). <br> In this dataset, the image folders are also subdivided into measurements with uniform and non-uniform gas injection and designated with the numbers of the measurement points, which are listed in the Excel and CSV files.</p> <p>The two datasets are the supplementary research data for the following publications: <br> - S. Buscher, 2023, Visualization, measurement, and modelling of adiabatic gas-liquid flow in a cross-corrugated plate heat exchanger channel, Doctoral thesis, Technische Universität Berlin, https://doi.org/10.14279/depositonce-17866. (supplemented by data sets I and II) <br> - S. Buscher, 2019, Visualization and modelling of flow pattern transitions in a cross-corrugated plate heat exchanger channel with uniform two-phase distribution, International Journal of Heat and Mass Transfer 144, 118643, https://doi.org/10.1016/j.ijheatmasstransfer.2019.118643. (supplemented by data set I, part 1-3)<br> - S. Buscher, 2021, Two-phase pressure drop and void fraction in a cross-corrugated plate heat exchanger channel: Impact of flow direction and gas-liquid distribution, Experimental Thermal and Fluid Science 126, 110380, https://doi.org/10.1016/j.expthermflusci.2021.110380. (supplemented by the measurement values in the Excel and CSV files of data set II)<br> - S. Buscher, 2022, Digital image analysis of gas-liquid flow in a cross-corrugated plate heat exchanger channel: A feature-based approach on various two-phase flow patterns, International Journal of Multiphase Flow 154, 104149, https://doi.org/10.1016/j.ijmultiphaseflow.2022.104149. (supplemented by data set II)</p>
Paradigm Shifts in Environmental Policies: The Role of Digital Communication and Knowledge Exchange in the T20/G20 Transnational Policy Community
<p>Discussion:<br> Do you see paradigm shifts in environmental policies in Indonesia?<br> Can transnational research based policy advice, as performed by the T20, be an incubator for paradigm shifts?<br> What role does/could/should digital knowledge exchange play?</p>
Data from: Novel approaches for assessing acclimatization in birds reveal seasonal changes in peripheral heat exchange and thermoregulatory behaviors
<p>Using thermography and behavioral analyses, we found that heat exchange and thermoregulatory behaviors changed seasonally in chipping sparrows (<em>Spizella passerina</em>). Studies on seasonal acclimatization in birds have primarily involved metabolic measurements, few of which have investigated behaviors, and none have investigated changes in peripheral heat exchange. We captured chipping sparrows in the winter and summer of 2022 in Wilmington, North Carolina, and we collected thermal images of these birds at 15.0°, 27.5°, and 40.0°C. We found that heat dissipation through the bill and legs changed seasonally, but surprisingly both were higher in winter than in summer. We found that heat dissipating behaviors were more common in winter, whereas heat conserving behaviors were more common in summer, and that behaviors associated with resource costs (e.g., panting) or predation risk (e.g., bill tucking) showed the most distinct differences between seasons. Meanwhile, low-cost and low-risk postural adjustments (e.g., feather adjustments and tarsus exposure) did not vary as strongly between seasons but followed similar trends. The seasonal adjustments to behaviors suggest that non-acclimatized birds must use costly thermoregulatory behaviors more frequently than acclimatized birds. The use of thermography catalyzed the discovery of one completely novel behavior, and the first detection of a known behavior in a new species. Both novel behaviors aided in evaporative heat loss and occurred more commonly in winter, supporting the presence of seasonal acclimatization as evidenced by behavioral adjustments. These results provide novel insights to the process of acclimatization and suggest a role of behavioral adjustments in seasonal acclimatization.</p>
Knowledge Exchange - Data from the survey on Alternative Publishing Platforms
<p>The survey data are available in two formats (.csv and .xlsx). They each contain the answers of 45 respondents to the survey conducted at the start of 2023.</p> <p>The <a href="https://docs.google.com/forms/d/e/1FAIpQLScXVQ_4UqZzPh6tj4lGna_SLA4iD0DF5DGjkYKu4HlVJ9AitA/viewform">survey form is still open</a>.</p>
Hepatitis C Treatment in PWIDs: MAT or Syringe Exchange Assisted-therapy vs Standard of Care
ClinicalTrials.gov study NCT03093415. IPD Sharing: YES. Countries: 1. Publications: 7.
Caplacizumab and Immunosuppressive Therapy Without Firstline Therapeutic Plasma Exchange in Adults With Immune-mediated Thrombotic Thrombocytopenic Purpura
ClinicalTrials.gov study NCT05468320. IPD Sharing: YES. Countries: 11. Publications: 1.
The Dayhoff Exchange Score: A new metric to quantify site saturation in amino acid datasets prior to phylogenetic analysis
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Data from: Extensive admixture among karst-obligate salamanders reveals evidence of recent divergence and gene exchange through aquifers
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Data associated with: Emergence of the physiological effects of elevated CO2 on land-atmosphere exchange of carbon and water
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Ising model for nanocrystal ligand exchange
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Data from: Novel approaches for assessing acclimatization in birds reveal seasonal changes in peripheral heat exchange and thermoregulatory behaviors
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No evidence that grooming is exchanged for coalitionary support in the short- or long-term via direct or generalized reciprocity in unrelated rhesus macaques
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Data from: Ecosystem carbon exchange on conversion of Conservation Reserve Program grasslands to annual and perennial cropping systems
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Data from: Promoting success in thin layer sediment placement: effects of sediment grain size and amendments on salt marsh plant growth and greenhouse gas exchange
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Dirt cheap: An experimental test of controls on resource exchange in an ectomycorrhizal symbiosis
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ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.