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7,324 results for “pathways”
Different spectral sensitivities of ON- and OFF-motion pathways enhance the detection of approaching color objects in Drosophila - Processed Data
<p>Processed data and code for plotting figures for the paper:</p><p>"Different spectral sensitivities of ON- and OFF-motion pathways enhance the detection of approaching color objects in Drosophila", by Kit D. Longden, Edward M. Rogers, Aljoscha Nern, Heather Dionne, Michael B. Reiser.</p><p>Data (compressed results folder) and plotting code (compressed src folder) are MATLAB files (see READ_ME for version information and toolboxes). The Source Data excel file also contains the data plotted in the paper figures.</p>
Examination of head versus body heading may help clarify the extent to which animal movement pathways are structured by environmental cues?
<p>Understanding the processes that determine how animals allocate time to space is a major challenge, althoughit is acknowledged that summed animal movement pathways over time must define space-time use. The criticalquestion is then, what processes structure these pathways? Following the idea that turns within pathways mightbe based on environmentally determined decisions, we equipped Arabian oryx with head- and body-mounted tagsto determine how they orientated their heads – which we posit is indicative of them assessing the environment– in relation to their movement paths, to investigate the role of environment scanning in path tortuosity. Aftersimulating predators to verify that oryx look directly at objects of interest, we recorded that, during routinemovement, > 60% of all turns in the animals' paths, before being executed, were preceded by a change in headheading that was not immediately mirrored by the body heading: The path turn angle (as indicated by the bodyheading) correlated with a prior change in head heading (with head heading being mirrored by subsequent turnsin the path) twenty-one times more than when path turns occurred due to the animals adopting a body headingthat went in the opposite direction to the change in head heading. Although we could not determine what theobjects of interest were, and therefore the proposed reasons for turning, we suggest that this reflects the use ofcephalic senses to detect advantageous environmental features (e.g. food) or to detect detrimental features (e.g.predators). The results of our pilot study suggest how turns might emerge in animal pathways and we proposethat examination of points of inflection in highly resolved animal paths could represent decisions in landscapesand their examination could enhance our understanding of how animal pathways are structured.</p>
Forest restoration and fuels reduction work: Different pathways for achieving success in the Sierra Nevada
Fire suppression and past selective logging of large trees have fundamentally changed frequent-fire adapted forests in California. The culmination of these changes produced forests that are vulnerable to catastrophic change by wildfire, drought, and bark beetles, with climate change exacerbating this vulnerability. Management options available to address this problem include mechanical treatments (Mech), prescribed fire (Fire), or combinations of these treatments (Mech + Fire). We quantify changes in forest structure and composition, fuel accumulation, modeled fire behavior, inter-tree competition, and economics from a 20-year forest restoration study in the northern Sierra Nevada. All three active treatments (Fire, Mech, Mech + Fire) produced forest conditions that were much more resistant to wildfire than the untreated control. The treatments that included prescribed fire (Fire, Mech + Fire) produced the lowest surface and duff fuel loads and the lowest modeled fire hazards. Mech produced low fire hazards beginning 7-years after the initial treatment and Mech + Fire had lower tree growth than controls. The only treatment that produced inter-tree competition similar to historical California mixed-conifer forests was Mech + Fire, indicating that stands under this treatment would likely be more resilient to enhanced forest stressors. While Fire reduced modeled fire hazard and reintroduced a fundamental ecosystem process, it was done at a net cost to the landowner. Using Mech that included mastication and commercial thinning resulted in positive revenues and was also relatively strong as an investment in reducing modeled fire hazard. The Mech + Fire treatment represents a compromise between the desire to sustain financial feasibility and the desire to reintroduce fire. One key component to long-term forest conservation will be continued treatments to maintain or improve the conditions from forest restoration. Many Indigenous people speak of 'active stewardship' as one of the key principles in land management and this aligns well with the need for increased restoration in western US forests. If we do not use the knowledge from 20+ years of forest research and the much longer tradition of Indigenous cultural practices and knowledge, frequent-fire forests will continue to be degraded and lost.
Contact tracing of binary stars: Pathways to stellar mergers (online data)
<p><strong># Data for Henneco et al. (2024)</strong></p> <p>This repository contains the input files required to reproduce the MESAbinary models from Henneco et al. (2024). It also contains the full machine-readable version of Table G.1. For an overview of the quantities in each column, we refer to the notes underneath Table G.1 in the paper.</p> <p>MESA r12778<br>MESA SDK 20.3.2</p> <p><strong>## MESA_inlists</strong></p> <p>- <strong>inlist1</strong>: inlist for the initially more massive primary star</p> <p>- <strong>inlist2</strong>: inlist for the initially less massive secondary star</p> <p>-<strong> inlist_project</strong>: inlist for the binary system</p> <p> </p> <p><strong>## run_extras</strong></p> <p>- <strong>run_star_extras.f</strong>: subroutines and functions for the individual stars</p> <p>- <strong>run_binary_extras.f</strong>: subroutines and functions for the binary system</p> <p> </p> <p><strong>## MESA_ZAMS_models</strong></p> <p>Precomputed ZAMS models read in through <strong>inlist1</strong> and <strong>inlist2</strong>.</p> <p> </p> <p><strong>## table_G1_full.txt</strong></p> <p>Full machine-readable version of Table G.1.<br> </p> <p><strong>## MESA_models_output</strong></p> <p>Detailed output of the MESAbinary calculations. <em>Will be added in due time.</em></p>
Datasets used for analysis and plotting in the study by Zhou et al. "Antarctic vortex dehydration in 2023 as a substantial removal pathway for Hunga Tonga-Hunga Ha'apai water vapour"
<p>These data are model simulated water vapour (H2O) and ozone (O3) model mixing ratios between 2022 and 2023 that were used to create figures for the study by Zhou et al. "Antarctic vortex dehydration in 2023 as a substantial removal pathway for Hunga Tonga-Hunga Ha'apai water vapour".</p><p>We use the TOMCAT/SLIMCAT 3-D off-line chemical transport model (Chipperfield, 2006) to represent the Hunga Tonga-Hunga Ha'apai (HTHH) H2O plume and quantify its longevity and ozone impacts. The model was run at a horizontal resolution of 2.8 degrees and 32 levels from the surface to about 60 km forced with ECMWF ERA5 meteorology. </p><p>A control simulation (file name with "MPC741") without treatment of HTHH was integrated from 1980 to October 2023. Output from run control for January 1st, 2022 was used to intialise a HTHH H2O perturbed run (run HT, file name with "MPC744") until October 2023 with the injection of 150 Tg of H2O into the low-mid stratosphere at southern subtropical latitudes. To test the possible future evolution of the HTHH H2O three further model runs were performed. These were integrated from January 1st, 2023 until 2030 using repeating ERA-5 meteorology for 2022. Run Con_2022 (file name with "MPC741__2022pd") was an extension of run control; run HT2022 was an extension of run HT (file name with "MPC744_2022pd")<i>, </i>and run HT2022ns (file name with "MPC744_2022pdns") was the same as run HT_2022 but had sedimentation of PSC particles turned off. Please see our paper for more information about the simulations.</p>
Tracking sargassum pathways across the Tropical Atlantic
<p>This dataset includes the date, time, address, latitude, longitude, speed, and altitude data collected by GPS trackers deployed in sargassum mats. For more information on the methods and data see Fidai et al. (2023) 'Tracking and detecting sargassum pathways across the Tropical Atlantic'. </p>
Recurring Trans-Atlantic Dust Pathways during June-July
<p>These data represent a self-organizing map (SOM) classification of all trans-Atlantic integrated dust fluxes (IDT) between June-July 1981-2020 as presented in:</p><p><strong>Miller, P. W., </strong>and C. Ramseyer, In press: The relationship between the Saharan Air Layer, convective environmental conditions, and precipitation in Puerto Rico. <i>Journal of Geophysical Research: Atmospheres</i>. </p><p>Each daily IDT field is paired to one of 12 discrete pathways in idt_bmus_junjul.csv. The mean composite IDT over the tropical North Atlantic for each of these 12 patterns, as well as the mean composite Galvez-Davison Index (ERS_idt_node_gdi_1981_2020_junjul.nc) and mean composite precipitation over Puerto Rico (ERS_idt_node_prcp_1981_2020_junjul.nc) for the same node-date pairings are also provided. See the above-referenced manuscript for more details.</p>
Techno-economic dataset for open modelling of decarbonization pathways in The Philippines
<p><span>This</span><span> file contains the data and data sources updated for the paper :</span></p> <p> </p> <p><span>'</span><span>The Philippines’ Energy Transition: Assessing Emerging Technology Options using OSeMOSYS (Open Source Energy Modelling System)'</span></p> <p><span>All other data in the model used for the paper is from the Philippines Starter Data kit (Allington, 2021). Renewable Energy Costs are updated from (Alexander, 2023).</span></p> <p> </p>
Ramoon's Work PATHWAYS T5.4
<p>The document refers to the database used in the Milestone 45 - Data on post-farm-gate impact collected for anticipatory LCA.</p>
Data and literature repository for "Climate Futures are Political Futures: Integrating Political Development Into the Shared Socioeconomic Pathways (SSPs)"
<p>The datasets provided in the repository (listed in Table 1 of the manuscript):</p> <ul> <li>Governance (Andrijevic et al., 2020)*</li> <li>Government effectiveness (Andrijevic et al., 2020)*</li> <li>Violent conflict (Hegre et al., 2016)</li> <li>Rule of law (update to the Soergel et al., 2021)</li> </ul> <p>*Please note that these two variables can be found in the same data file.<br><br></p> <p>The indicators can also be retrieved through the <a href="https://ssp-extensions.apps.ece.iiasa.ac.at/">SSP Extensions Explorer.</a> <br><br><strong><br>For applications of the projections of political indicators in further analyses, please consult the following references: </strong> </p> <p>Brutschin, E., Pianta, S., Tavoni, M., Riahi, K., Bosetti, V., Marangoni, G., & Van Ruijven, B. J. <a href="https://iopscience.iop.org/article/10.1088/1748-9326/abf0ce/meta">A multidimensional feasibility evaluation of low-carbon scenarios.</a> <em>Environmental Research Letters </em>2021, <em>16</em>(6), 064069.</p> <p>Gidden MJ, Brutschin E, Ganti G, Unlu G, Zakeri B, Fricko O<em>, et al. </em><a title="https://iopscience.iop.org/article/10.1088/1748-9326/acd8d5" href="https://iopscience.iop.org/article/10.1088/1748-9326/acd8d5">Fairness and feasibility in deep mitigation pathways with novel carbon dioxide removal considering institutional capacity to mitigate</a>. <em>Environmental Research Letters </em>2023, <strong>18</strong>(7)<strong>: </strong>074006. </p> <p>Hoch JM, de Bruin SP, Buhaug H, Von Uexkull N, van Beek R, Wanders N. <a title="https://iopscience.iop.org/article/10.1088/1748-9326/ac3db2" href="https://iopscience.iop.org/article/10.1088/1748-9326/ac3db2">Projecting armed conflict risk in Africa towards 2050 along the SSP-RCP scenarios: a machine learning approach</a>. <em>Environmental Research Letters </em>2021, <strong>16</strong>(12)<strong>: </strong>124068. </p> <p>Joshi DK, Hughes BB, Sisk TD. <a title="https://www.sciencedirect.com/science/article/abs/pii/S0305750X15000145" href="https://www.sciencedirect.com/science/article/abs/pii/S0305750X15000145">Improving governance for the Post-2015 Sustainable Development Goals: Scenario forecasting the next 50 years</a>. <em>World Development </em>2015, <strong>70: </strong>286-302. </p> <p>Moyer JD. <a title="https://www.sciencedirect.com/science/article/pii/S0305750X23000062" href="https://www.sciencedirect.com/science/article/pii/S0305750X23000062">Blessed are the peacemakers: The future burden of intrastate conflict on poverty</a>. <em>World Development </em>2023, <strong>165: </strong>106188. </p> <p>Moyer JD, Turner SD, Meisel CJ. <a title="https://journals.sagepub.com/doi/abs/10.1177/0022343320929740" href="https://journals.sagepub.com/doi/abs/10.1177/0022343320929740">What are the drivers of diplomacy? Introducing and testing new annual dyadic data measuring diplomatic exchange</a>. <em>Journal of Peace Research </em>2021, <strong>58</strong>(6)<strong>: </strong>1300-1310. </p> <p>Petrova, K, Olafsdottir, G, Hegre, H, Gilmore, EA (2023). <a title="https://iopscience.iop.org/article/10.1088/1748-9326/acb163" href="https://iopscience.iop.org/article/10.1088/1748-9326/acb163">The ‘conflict trap’ reduces economic growth in the shared socioeconomic pathways</a>. <em>Environmental Research Letters</em>, 2023, <strong>18</strong>(2), 024028. </p>
Methane and Carbon Dioxide Production and Emission Pathways in the Belowground and Draining Water Bodies of a Tropical Peatland Plantation Forest
<p>This is the data repository for the second version (revised) of the manuscript "Methane and Carbon Dioxide Production and Emission Pathways in the Belowground and Draining Water Bodies of a Tropical Peatland Plantation Forest<strong>"</strong> submitted to Geophysical Research Letters on 10 January 2025.</p>
Supplementary dataset for "Phenylacetic acid metabolism in land plants: novel pathways and metabolites"
<p>Supplementary dataset with measured data for publication "Phenylacetic acid metabolism in land plants: novel pathways and metabolites"</p>
Figure 1 in Identification of planthoppers (Hemiptera: Delphacidae) intercepted on aquarium plants in Florida and elucidation of a potential pathway for exotic aquatic and semiaquatic pests
Figure 1. Opiconsiva anacharsis (Fennah). A) Opiconsiva anacharsis on Echinodorus sp. plant as sold in stores. Photograph by Melanie Cain, DPI. B) Adult female dorsal habitus. Photograph by Jade S. Allen, DPI. C) Male genital capsule, lateral view. Photograph by Jade S. Allen, DPI. D) Male genital capsule, posterior view. Photograph by Susan E. Halbert, DPI.
Research Data Supporting "Controlling Exchange Pathways in Dynamic Supramolecular Polymers by Controlling Defects"
<p>This repository contains the set of data shown in the paper "<strong>Controlling Exchange Pathways in Dynamic Supramolecular Polymers by Controlling Defects</strong>", published on <strong>ACS Nano</strong> (DOI: 10.1021/acsnano.1c01398).</p> <p>The data stored in this section is organized as follow:</p> <p><strong>supervisedClustering/ :</strong> folder containing scripts for carrying out the supervised analysis as discussed in the main paper. Subfolders are divided in <strong><code>kmeans</code></strong><code><strong>/</strong></code> and <strong><code>spectral</code></strong><code>/</code> contain the different analysis as explained in the paper.</p> <p><strong>unbiasMD/ : </strong>folder containing the Gromacs input files for reproducing the unbias MD trajectories of the 3 types of fiber, as explained in the paper.</p> <p><strong>biasMD/</strong> <strong>:</strong> folder containing the PLUMED input files for reproducing enhanced sampling dynamics as discussed in the paper.</p> <p><strong>unsupervisedClustering/ : </strong>folder containing the directions and the original files to reproduce the unsupervised clustering results.</p>
Technology pathways could help drive the U.S. West Coast grid's exposure to hydrometeorological uncertainty (Figure Data)
<p>Data used to create figures for:</p> <p>Wessel, J., Kern, J.D., Voisin, N., Oikonomou, K., Haas, J. (2021). “Technology pathways could drive the U.S. West Coast grid's exposure to hydrometeorological uncertainty”.</p> <p>California and West Coast Power System (CAPOW) model is Python based. The model was built to simulate the operations of the major markets comprising the West Coast bulk electric power system: the Mid-Columbia (Mid-C) market, and the California Independent System Operator (CAISO). This version adds future technology pathways, EV adoption, and battery storage.</p> <p>See https://github.com/jawessel/CAPOW_pathways (v1.0 release) for version of CAPOW model used.</p>
Figures 1–6 in Occurrence of an exotic whitefly, Siphoninus phillyreae (Haliday) (Hemiptera: Aleyrodidae) in South Korea and its potential pathway analysis
Figures 1–6. Ash whitefly (Siphoninus phillyreae (Haliday)) and regional map of South Korea. 1–2) Several life stages of the ash whitefly on the underside of leaves of a pomegranate tree (GN: Jinju, 3-viii-2021 (S.J. Suh)). 3) Puparium (slide-mounted). 4) Siphons on marginal and submarginal areas of dorsum. 5) Vasiform orifice. 6) Distribution map of ash whitefly in South Korea.
Bacterial F-type ATP synthases follow a well-choreographed assembly pathway
<p>The raw data provided here are referenced in the manuscript ''Bacterial F-type ATP synthases follow a well-choreographed assembly pathway'', which is in preparation for publication. The raw data files have the same name as the figures generated from the respective raw data.</p> <p>Content of the dataset:</p> <p>1) raw spectra from LILBID measurements<br> 2) raw spectra from nESI measurements<br> 3) raw spectra from HPLC measurements<br> 4) absorbance measurements and calculations for activity assays</p>
Dataset related to article "Complement activation promoted by the lectin pathway mediates C3aR-dependent sarcoma progression and immunosuppression"
<p>This record contains raw data related to article “Complement activation promoted by the lectin pathway mediates C3aR-dependent sarcoma progression and immunosuppression"</p> <p>Complement has emerged as a component of tumor promoting inflammation. We conducted a systematic assessment of the role of complement activation and effector pathways in sarcomas. <em>C3</em> <sup>-/-</sup>, <em>MBL1/2</em> <sup>-/-</sup> and <em>C4</em> <sup>-/-</sup> mice showed reduced susceptibility to 3-methylcholanthrene sarcomagenesis and transplanted sarcomas, whereas C1q and factor B deficiency had marginal effects. Complement 3a receptor (C3aR), but not C5aR1 and C5aR2, deficiency mirrored the phenotype of <em>C3</em> <sup>-/-</sup> mice. C3 and C3aR deficiency were associated with reduced accumulation and functional skewing of tumor-associated macrophages, increased T cell activation and response to anti-PD-1 therapy. Transcriptional profiling of sarcoma infiltrating macrophages and monocytes revealed the enrichment of MHC II-dependent antigen presentation pathway in C3-deficient cells. In patients, C3aR expression correlated with a macrophage population signature and C3 deficiency-associated signatures predicted better clinical outcome. These results suggest that the lectin pathway and C3a/C3aR axis are key components of complement and macrophage-mediated sarcoma promotion and immunosuppression.</p>
Dataset - The cGAS-STING pathway drives type I IFN immunopathology in COVID-19
<p>Dataset corresponding to the LoC studies in the manuscript titled The cGAS-STING pathway drives type I IFN immunopathology in COVID-19. The following data are included:</p> <p>BioEM.zip: Volumetric electron microscopy - representative movies of volumetric scans of fields of view of the vascular face of uninfected control and SARS-CoV-2 infected LoCs. Blender file containing reconstruction of mitochondria.</p> <p>Cleaved-caspase3.zip: Imaris files for analysis of 3D stacks from two- and three-component LoCs immunostained for cleaved-caspase 3.</p> <p>IFN beta.zip: Imaris files for analysis of 3D stacks from two- and three-component LoCs immunostained for IFN beta.</p> <p>PhosphoSTING.zip: Imaris files for analysis of 3D stacks from two component LoCs immunostained for phosphoSTING.</p> <p>Proteomics_R_code.Rmd: Annotated custom scripts in R for the analysis of the proteomics data.</p>
Galaxy Training Data for "Designing plasmids encoding predicted pathways by using the BASIC assembly method"
<p>This dataset provides the data needed for the Galaxy BASIC assembly workflow training tutorial (<a href="https://galaxy-synbiocad.org">https://galaxy-synbiocad.org</a>). This workflow provides a pathway to design plasmids encoding predicted metabolic pathways using the BASIC assembly method (<a href="https://doi.org/10.1021/sb500356d">https://doi.org/10.1021/sb500356d</a>). It generates scripts allowing the automatic construction of these plasmids using an Opentrons liquid handling robot. After downloading these scripts on a computer connected to an Opentrons (<a href="https://opentrons.com">https://opentrons.com</a>), the user can perform the automatic construction of the plasmids on the bench.</p> <p>The content of the dataset is as follows:</p> <ul> <li> <p>an SBML file modeling a heterologous pathway producing lycopene such as those produced by the Pathway Analysis Workflow (<a href="https://galaxy-synbiocad.org">https://galaxy-synbiocad.org</a>).</p> </li> <li> <p>a CSV file listing the parts to be used (linkers, backbone and promoters) in the constructions.</p> </li> <li> <p>two YAML files providing two examples of settings, i.e. providing the identifiers of the laboratory equipment and the parameters of the DNA robot.</p> </li> </ul>
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.