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Data set and code supporting Marshall et al. 2020. No room to roam: King Cobras reduce movement in agriculture.
<p>Data and code used in the publication:</p> <p>Marshall, B.M., Crane, M., Silva, I., Strine, C.T., Jones, M.D., Hodges, C.W., Suwanwaree, P., Artchawakom, T., Waengsothorn, S., Goode, M. (2020). No room to roam: King Cobras reduce movement in agriculture. <em>Mov Ecol</em> <strong>8, </strong>33 (2020). https://doi.org/10.1186/s40462-020-00219-5</p> <p>Marshall, B.M., Crane, M., Silva, I., Strine, C.T., Jones, M.D., Hodges, C.W., Suwanwaree, P., Artchawakom, T., Waengsothorn, S., Goode, M. (2020). No room to roam: King Cobras reduce movement in agriculture. bioRxiv 2020.03.24.006676; doi: https://doi.org/10.1101/2020.03.24.006676</p> <p>Including: telemetry data, habitat shapefile and derived rasters, ISSF and JAGS model specification and results, code to reproduce analysis and generate figures. </p>
Using the Tea Bag Index to unravel how interactions between an antibiotic (Trimethoprim) and endocrine disruptor (17a-estradiol) affect aquatic microbial activity: Supporting Dataset 1
<p>The constant release of complex mixture of pharmaceuticals, including antimicrobials and endocrine disruptors, into the aquatic environment. These have the potential to affect aquatic microbial metabolism and alter biogeochemical cycling of carbon and nutrients. We used the Tea Bag Index (TBI) for decomposition within a series of contaminant exposure experiments to test how interactions between an antibiotic (trimethoprim) and endocrine disruptor (17a-estradiol) affects microbial activity in an aquatic system. The TBI is a citizen science tool used to test microbial activity by measuring the differential degradation of green and rooibos tea as proxies for labile and recalcitrant organic matter decomposition. Here we present the raw data on pharmaceutical exposures and the mass loss of the Rooibos and Green tea bags within the experiment. From Tea Bag mass loss we then calculated the Stabilisation Factor (S) and Initial Decomposition Rate of the labile organic matter fraction.</p>
Support and Opposition to Migration, 2018 Extensions
<p>Support and Opposition to Migration. Extension to claims published in the press until December 2018. Data in CSV format, Codebook and metadata along DDI standard.</p>
Data set and code supporting Marshall et al., "An inventory of online reptile images"
<p>Data set and code supporting: MARSHALL, B.M., FREED, P., VITT, L.J., BERNARDO, P., VOGEL, G., LOTZKAT, S., FRANZEN, M., HALLERMANN, J., SAGE, R.D., BUSH, B. and DUARTE, M.R., 2020. An inventory of online reptile images. <em>Zootaxa</em>, <em>4896</em>(2), pp.251-264. DOI:<a href="https://doi.org/10.11646/zootaxa.4896.2.6">10.11646/zootaxa.4896.2.6</a></p> <p>Data includes: </p> <ul> <li>Supplementary Table 1. List of all species and the number of photos in each of the 6 repositories: "SuppData1_Species_Photo_Count_Table_2020-08-04_no_syn.csv"</li> <li>Supplementary Table 2. List of species without photo in any of the 6 repositories: "SuppData2_Species_no_photos.csv"</li> <li>Supplementary Table 3. Per country summary data of number of species present and number with images: "SuppData3_Country_species_counts.csv"</li> <li>Reptile Database species checklist: "reptile_checklist_2020_04.csv"</li> <li>Reptile Database species synonyms used in second Wikimedia search: "reptile names 2019 syno.csv"</li> </ul> <p>Code includes:</p> <ul> <li>R code used to retrieve Flickr photograph metadata: "SuppCode1_Flickr_search.R"</li> <li>R code used to retrieve Wikimedia photograph metadata: "SuppCode2_Wikimedia_query.R"</li> <li>R code used to retrieve HerpMapper photograph metadata: "SuppCode3_HerpMapper_search.R"</li> <li>R code used to generate figures: "SuppCode4_Figure Generation.R"</li> </ul> <p>Also includes Zootaxa supplementary table.</p> <p> </p>
Neurothreads: development of supportive carriers for mature dopaminergic neuron differentiation and implantation
<p>Raw data for the publication:</p> <p><strong>Neurothreads: development of supportive carriers for mature dopaminergic neuron differentiation and implantation</strong></p>
arXiv:1704.05309: Supporting dataset
<p>This is a supporting dataset that accompanies arXiv:1704.05309. It consists of databases and parameter files used to generate the numerical results presented in the paper.</p> <p>This deposit contains the following files:</p> <p><strong>Databases</strong></p> <p>These are SQLite databases produced by the Sussex LSSEFT tool (git revision 977e5b03) containing the one-loop SPT results and counterterms used to obtain EFT predictions for the real-space and redshift-space power spectra.</p> <ul> <li><strong>Planck2015_CAMB@z=0_k10-full.sqlite</strong><br> This contains results for a Planck2015 cosmology. The initial power spectrum is generated using linear theory by CAMB at z = 50, using the parameter file documented below. The tree-level component is generated using a CAMB z = 0 power spectrum, also computed using linear theory, for which we also supply a CAMB parameter file.</li> <li><strong>MDR1_CAMB@z=0_k10-full.sqlite</strong><br> This contains results for a cosmology matching the MultiDark MDR1 simulation. The initial power spectrum is generated using linear theory by CAMB at z = 50 and the tree-level component is generated using a CAMB z = 0 power spectrum as above. The corresponding parameter files are supplied; see below.</li> <li><strong>MDR1_CAMB@z=0_k10-EdS.sqlite</strong><br> This contains results matching the <strong>MDR1_CAMB@z=0_k10-full.sqlite </strong>database, but with growth functions computed using the standard SPT Einstein-de Sitter approximation.</li> </ul> <p><strong>CAMB parameter files</strong></p> <p>Power spectra were produced using the November 2015 release of CAMB.</p> <ul> <li><strong>Planck2015_linear_init_params.ini</strong>, <strong>Planck2015_linear_final_params.ini</strong><br> Parameter files to generate initial (z = 50) and final (z = 0) linear power spectra in the Planck2015 cosmology.</li> <li><strong>Planck2015_nonlinear_params.ini</strong><br> Parameter file to generate a <em>nonlinear </em>z = 0 power spectrum using the HALOFIT prescription for the Planck2015 cosmology. This is used to renormalize the EFT power spectrum.</li> <li><strong>MDR1_linear_init_params.ini</strong>, <strong>MDR1_linear_final_params.ini</strong><br> Parameter files to generate initial (z = 50) and final (z = 0) linear power spectra in the MDR1 cosmology.</li> </ul> <p><strong>gevolution parameter files</strong></p> <p>N-body simulations were performed using gevolution 1.1.</p> <ul> <li><strong>gevolutionsettings.ini</strong><br> This is a settings file for gevolution that reproduces our 1024^3-particle, (2000 Mpc/h)-side simulation volume, used to compute the real-space power spectrum and the l = 0, 2, 4 multipoles of the redshift-space power spectrum.</li> </ul>
Dataset supporting the paper: Symbolic Versus Numerical Computation and Visualization of Parameter Regions for Multistationarity of Biological Networks
<p>Dataset supporting the paper:</p> <p>Matthew England, Hassan Errami, Dima Grigoriev, Ovidiu Radulescu, Thomas Sturm, and Andreas Weber. Symbolic Versus Numerical Computation and Visualization of Parameter Regions for Multistationarity of Biological Networks. In Proceedings of CASC ’17, Beijing, China, September 18-22 2017, 15 pages. Springer, 2017.</p> <p>The files whose name starts with "SamplePoints" are text files containing the data that produced the plots in the paper.</p> <p>The files whose name starts with "Sys" show the Maple computations used to produce the data. The mw files are to be run with the Maple Computer Algebra System (https://www.maplesoft.com/products/maple/). Pdf printouts of these have also been included for those who do not have access to Maple.</p> <p> </p>
Data in support of 'ENSO influences subsurface marine heatwave occurrence in the Kuroshio Extension'
<p>Data in support of 'Chandler M, Sprintall J, Zilberman NV. (2025). ENSO influences subsurface marine heatwave occurrence in the Kuroshio Extension. <em>Journal of Geophysical Research: Oceans</em>. <a href="https://doi.org/10.1029/2025JC022899" target="_blank" rel="noopener">https://doi.org/10.1029/2025JC022899</a>'</p> <p> </p> <p>There are 2 netCDF files:</p> <ol> <li>p40tem1211_2312.nc</li> <li>synthetic_T_10day_px40_kuroshio_chandler2024.nc</li> </ol> <p><strong>p40tem1211_2312.nc </strong>contains the temperature sections from <a href="https://www-hrx.ucsd.edu/px40.html">HR-XBT transect PX40</a> objectively mapped onto a 10-m depth grid and a 0.1° longitudinal grid. <em>[LONGITUDE; LATITUDE; DEPTH; TIME; TEM]</em></p> <p><strong>synthetic_T_10day_px40_kuroshio_chandler2024.nc</strong> contains the synthetic temperature anomaly time series between the surface and 800-m deep at the western end of transect PX40 over the period from January-1993 to April-2023, as well as the temperature annual cycle needed for reconstructing the full synthetic temperature time series. <em>[time; depth; longitude; latitude; T_prime; T_ann]</em></p> <p> </p> <p>There is 1 MATLAB file:</p> <ol> <li>px40_synthetic_T.m</li> </ol> <p><strong>px40_synthetic_T.m</strong> is the MATLAB script used to produce the synthetic temperature anomaly time series saved in synthetic_T_10day_px40_kuroshio_chandler2024.nc.</p> <p> </p> <p>There is 1 Julia file:</p> <ol> <li>px40_synthetic_T_julia.jl</li> </ol> <p><strong>px40_synthetic_T_julia.jl</strong> is a Julia implementation of the MATLAB script px40_synthetic_T.m.</p> <p> </p> <p>There is 1 R file:</p> <ol> <li>px40_synthetic_T_R.R</li> </ol> <p><strong>px40_synthetic_T_R.R</strong> is an R implementation of the MATLAB script px40_synthetic_T.m.</p> <p> </p> <p><code>Version history:</code><br><code>v1.0.0 First uploaded (25-November-2024)</code><br><code>v1.0.1 Julia script uploaded (18-January-2025)</code><br><code>v1.0.2 R script uploaded (28-January-2025)</code><br><code>v1.1.0 Updated description of synthetic_T_10day_px40_kuroshio_chandler2024.nc to include reference to accepted publication (21-August-2025)</code></p>
Global Naturalized Alien Flora (GloNAF). Open access data to support research on understanding global plant invasions.
<p>This dataset is a snapshot of the Global Naturalized Alien Flora (GloNAF) database, version 2.02. GloNAF is a continuously updated, curated compilation of alien naturalized vascular plant inventories for geographic regions from around the world. The dataset has 16,429 unique taxa reported as naturalized or invasive and covers 1,343 regions (including 427 islands) from 336 data sources. For each region, the status (invasive, naturalized) is provided as listed in the original source. We provide the scientific names included with the original data source, and the matching accepted name or synonym of the taxon as given in the World Checklist of Vascular Plants (WCVP) Version 12. In addition, we provide an ESRI shapefile of polygons for each region. We also provide several variables that can be used to filter the data according to quality and completeness of alien taxon lists, which vary among the combinations of regions and data sources.</p> <p>The 'glonaf_flora2.csv' file lists the IDs ('taxon_wcvp_id') of all naturalized taxa contained in GloNAF and the regions they occur in. The 'glonaf_taxon_wcvp.csv' lists the original taxon names provided in the source data along with the corresponding accepted taxon name from the WCVP (version 12) for all alien taxa in GloNAF, regardless of their naturalization status. To link taxon names with naturalization records, join the 'id' column of the 'glonaf_taxon_wcvp.csv' file to the 'taxon_wcvp_id' column in 'glonaf_flora2.csv' . Additional information regarding the original source of the data ('glonaf_reference.csv'), specific attributes of the taxon lists ('glonaf_list.csv') and the region ('glonaf_region.csv') can also be joined similarly to 'glonaf_flora2.csv '. </p> <p> </p>
Dataset for: A systematic literature review on user factors to support the sense of presence
<p>This dataset was created for a publication of Wiepke, Axel and Heinemann, Birte called "A systematic literature review on user factors to support the sense of presence". In this paper we used the PRISMA-method to collect Papers via Google Scholar on the third of April 2023 with the search term:<br>(framework OR model OR frameworks OR models OR processes OR ontologies) AND ((“personality traits” OR “personality variables” OR “personality factors”) AND “spatial presence”) AND (“virtual reality”) AND (learn OR edu\*)</p> <p>The results were pictured in "agreed" findings, where more than 50% of found studies supported a category of results and in "controversial", where there were significant findings, but less than 50% of the studies reported significance.</p> <p>This dataset contains:</p> <ul> <li>raw data for our literature review in .bib</li> <li>our main findings with categories in .csv</li> <li>a short Jupyter notebook script for one graphic in ipynb</li> <li>other graphics as .png</li> </ul>
Supporting Data - Sentinel-1 Detection of Ice Slabs on the Greenland Ice Sheet
<p>This dataset contains supporting data accompanying Culberg, R., Michaelides, R. J., and Miller, J. Z.: Sentinel-1 Detection of Ice Slabs on the Greenland Ice Sheet, EGUsphere [preprint], <a href="https://doi.org/10.5194/egusphere-2023-2652">https://doi.org/10.5194/egusphere-2023-2652</a>, 2023. The final accepted manuscript will be linked via the same preprint server at the time of publication. The dataset contains the following files:</p> <ul> <li>Sentinel-1 HV and HV/HH backscatter mosaics of the Greenland Ice Sheet formed using data from 1 Oct 2016 - 30 April 2017.</li> <li>Estimated average annual summer melt extent between 1 Nov 2014 and 31 Aug 2020, detected using seasonal variations in Sentinel-1 HH backscatter.</li> <li>The firn aquifer extent over Greenland derived from Sentinel-1 in Brangers et al. (2020), reprojected to EPSG:3413.</li> <li>The ice mask used in the study, derived from the BedMachine Greenland ice mask.</li> <li>The training and validation datasets derived from the Jullien et al. (2023) ice slabs detections from ice penetrating radar data that were used to optimize ice slab detection thresholds for the Sentinel-1 backscatter mosaics. </li> </ul>
Supporting data "Scaling theory for the statistics of slip at frictional interfaces"
<p>Principle data supporting "Scaling theory for the statistics of slip at frictional interfaces"</p> <p>T. W. J. de Geus and M. Wyart (2022), <em>Phys. Rev. E</em>, 106(6):065001.</p> <ul> <li>See code at <a href="../doi/10.5281/zenodo.10723197">doi: 10.5281/zenodo.10723197</a> (and its documentation) for workflow, detailed information of the data, and further dependencies. </li> <li>The files <code>N=*_Run*.zip</code> contain fully restorable events for event-driven athermal quasi-static shear. Sequentually numbered files contain different parts of a single dataset.</li> <li>The file <code>summary.zip</code> contains an extract of the key variables of these runs, and of triggers at different stresses. Finally, it contains "flow" data acquired by driving at finite rate. </li> <li>The files <code>N=3^6x4_Trigger_EnsemblePack.zip</code> contain fully restorable triggers at different stresses in the largest system. The sequentially numbered files correspond to one dataset split in different<em> </em><code>.h5</code> files.</li> <li>Highly specific (and poorly documentated) plotting functions are available upon request.</li> </ul>
GEOLAB Blind Prediction Contest - Supporting Documentation
<p>As part of the <a href="https://project-geolab.eu/">GEOLAB project</a>, the Institute of Geotechnics of TU Darmstadt called geotechnical engineers from industry and academia to participate in an international Blind Prediction Contest (BPC) on the response of piles under monotonic and cyclic lateral loading. Two separate tests were performed on a hollow open-ended steel pile embedded in dry sand. One test under monotonic loading and the other under quasi-static harmonic loading with more than 10,000 loading cycles.</p> <p>Contestant teams were allowed to submit predictions for both tests or for the monotonic test only. The predictions were objectively marked based on their discrepancy with the experimental values. The teams with the higher score in the prediction of each test were publicly announced. The rest of the submitted predictions will be anonymised and used for assessing the state of the art and the state of practice by the organiser committee.</p> <p>This dataset includes the supporting documentation provided to the participants. </p>
Supplementary Datasets for the publication "Rousettus aegyptiacus Fruit Bats Do Not Support Productive Replication of Cedar Virus upon Experimental Challenge"
<p>Cedar henipavirus (CedV), which was isolated from the urine of pteropodid bats in Australia, belongs to the genus Henipavirus in the family of Paramyxoviridae. It is closely related to the Hendra virus (HeV) and Nipah virus (NiV), which have been classified at the highest biosafety level (BSL4) due to their high pathogenicity for humans. Meanwhile, CedV is apathogenic for humans and animals. As such, it is often used as a model virus for the highly pathogenic henipaviruses HeV and NiV. In this study, we challenged eight Rousettus aegyptiacus fruit bats of different age groups with CedV in order to assess their age-dependent susceptibility to a CedV infection. Upon intranasal inoculation, none of the animals developed clinical signs, and only trace amounts of viral RNA were detectable at 2 days post-inoculation in the upper respiratory tract and the kidney as well as in oral and anal swab samples. Continuous monitoring of the body temperature and locomotion activity of four animals, however, indicated minor alterations in the challenged animals, which would have remained unnoticed otherwise.</p>
Sensor deployment to support the integrated energy management system in residential buildings in ReCO2ST LoRa Dataset
<p>LoRa Radio Testing Datasets for preliminary performance tests. These datasets were taken in order to ensure that the LoRa radios were capable of transmitting through concrete and testing various preamble settings of the radio. As per the paper,</p> <p>"Although these testing methodologies were indicative but not exact or perfect, to test in a manner that was qualitative would have been both costly and beyond the scope of the project." </p> <p>These tests were to help us verify feasibility of the chosen LoRa Radio</p>
Data to support the publication "Soil Water Retention as Affected by Management Induced Changes of Soil Organic Carbon: Analysis of Long-Term Experiments in Europe", https://doi.org/10.3390/land10121362
<p>Soil organic carbon content and water content at the different pressure points, as measured by Ioanna Panagea for the publication "Soil Water Retention as Affected by Management Induced Changes of Soil Organic Carbon: Analysis of Long-Term Experiments in Europe", https://doi.org/10.3390/land10121362 from the the long term experiments belonging in some of the SoilCare project partners. </p>
Dataset supporting the paper "Transmitting Stepwise Rotation among Three Molecule-Gear on the Au(111) Surface. J.Phys.Chem.Lett. 11 6892 (2020)"
<p>Dataset corresponding to figure 3 of the paper "Transmitting Stepwise Rotation among Three Molecule-Gear on the Au(111) Surface. J.Phys.Chem.Lett. 11 6892 (2020), DOI: <a href="https://doi.org/10.1021/acs.jpclett.0c01747">10.1021/acs.jpclett.0c01747</a>"</p> <p>List of files:<br> There are two folders corresponding to brominated and debrominated structures:</p> <ul> <li>.siesta files: STM simulated images in WsXM format (<a href="http://www.wsxm.eu/">http://www.wsxm.eu/</a>) simulated using STMpw (<a href="https://doi.org/10.5281/zenodo.3581159">https://doi.org/10.5281/zenodo.3581159</a>).</li> <li>CONTCAR files: relaxed structures in VASP format. They can be visualized with VESTA (<a href="https://jp-minerals.org/vesta/en/">https://jp-minerals.org/vesta/en/</a>)</li> </ul>
Dataset supporting the paper "Electronic decoupling of polyacenes from the underlying metal substrate by sp3 carbon atoms. Communications Physics 3, 159 (2020)"
<p>Dataset corresponding to theoretical calculations of the paper "Electronic decoupling of polyacenes from the underlying metal substrate by sp3 carbon atoms". Communications Physics 3, 159 (2020). <a href="https://doi.org/10.1038/s42005-020-00425-y">https://doi.org/10.1038/s42005-020-00425-y</a> </p> <p>Two folders corresponding to pentacene and dihydroheptacene structures on Ag(001):</p> <ul> <li>CONTCAR files: relaxed structures in VASP format. They can be visualized with VESTA (<a href="https://jp-minerals.org/vesta/en/">https://jp-minerals.org/vesta/en/</a>)</li> <li>.siesta files: STM images in WsXM format (<a href="http://www.wsxm.eu/">http://www.wsxm.eu/</a>) simulated using STMpw (<a href="https://doi.org/10.5281/zenodo.3581159">https://doi.org/10.5281/zenodo.3581159</a>).<br> </li> </ul> <p> </p>
Dataset supporting the paper "Supramolecular chemistry based on 4-acetylbiphenyl on Au(111). Phys. Chem. Chem. Phys. 22: 15208 (2020)"
<p>Dataset corresponding to theoretical calculations in the paper "Supramolecular chemistry based on 4-acetylbiphenyl on Au(111)" Phys. Chem. Chem. Phys. 22: 15208 (2020), <a href="http://dx.doi.org/10.1039/d0cp01657h">http://dx.doi.org/10.1039/d0cp01657h</a></p> <p>List of files:</p> <p>Several folders corresponding to the figures of the paper. They contain:</p> <ul> <li>.siesta files: STM images in WsXM format (<a href="http://www.wsxm.eu/">http://www.wsxm.eu/</a>) simulated using STMpw (<a href="https://doi.org/10.5281/zenodo.3581159">https://doi.org/10.5281/zenodo.3581159</a>).</li> <li>CONTCAR and POSCAR files: relaxed structures in VASP format. They can be visualized with VESTA (<a href="https://jp-minerals.org/vesta/en/">https://jp-minerals.org/vesta/en/</a>)</li> <li>.agr: grace files (<a href="https://plasma-gate.weizmann.ac.il/Grace/">https://plasma-gate.weizmann.ac.il/Grace/</a>).</li> </ul>
Dataset supporting the paper "Inducing open-shell character in porphyrins through surface-assisted phenalenyl π-extension. J. Am. Chem. Soc 142, 18109 (2020)"
<p>Dataset corresponding to theoretical calculations in the paper "<em>Inducing open-shell character in porphyrins through surface-assisted phenalenyl π-extension. J. Am. Chem. Soc 142, 18109 (2020)</em>" DOI: <a href="https://doi.org/10.1021/jacs.0c07781">10.1021/jacs.0c07781</a>.</p> <p>List of files:</p> <p>Several folders corresponding to the figures of the paper. They contain:</p> <ul> <li>.siesta files: STM images in WsXM format (<a href="http://www.wsxm.eu/">http://www.wsxm.eu/</a>) simulated using STMpw (<a href="https://doi.org/10.5281/zenodo.3581159">https://doi.org/10.5281/zenodo.3581159</a>).</li> <li>CONTCAR files: relaxed structures in VASP format. They can be visualized with VESTA (<a href="https://jp-minerals.org/vesta/en/">https://jp-minerals.org/vesta/en/</a>).</li> <li>.agr: grace files (<a href="https://plasma-gate.weizmann.ac.il/Grace/">https://plasma-gate.weizmann.ac.il/Grace/</a>).</li> </ul>
ScienceDex guides
Understand access before you commit
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.