Find research datasets worth reusing

opencc-by-4.0May 2021View details →

Modeled dynamic and thermodynamic sea ice growth in the Arctic 1980-2019 from NAOSIM

This data set is related to the paper "Evidence for an Increasing Role of Ocean Heat in Arctic Winter Sea Ice Growth" by Ricker et al. (2021). Please refer to this study for further details. Ricker, R., Kauker, F., Schweiger, A., Hendricks, S., Zhang, J., & Paul, S. (2021). Evidence for an Increasing Role of Ocean Heat in Arctic Winter Sea Ice Growth, Journal of Climate, 34(13), 5215-5227. Retrieved Nov 24, 2022, from https://journals.ametsoc.org/view/journals/clim/34/13/JCLI-D-20-0848.1.xml

opencc-by-4.0Dec 2022View details →

Dataset of traffic dynamics during the 2019 Kincade Wildfire Evacuation

This dataset has been sourced from the Performance Measurement System of the California Department of Transportation. The data has been processed, analysed, presented and summarized in the paper: Rohaert et al., ‘Traffic dynamics during the 2019 Kincade wildfire evacuation’, [Submitted for peer-review to an international journal.], 2022. CRediT author statement Arthur Rohaert: Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Resources, Software, Validation, Visualization, Writing - original draft, Writing - review & editing. Erica D. Kuligowski: Conceptualization, Funding acquisition, Investigation, Methodology, Resources, Supervision, Validation, Writing - review & editing. Adam Ardinge: Conceptualization, Formal analysis, Investigation, Methodology, Resources, Validation, Writing - review & editing. Jonathan Wahlqvist: Conceptualization, Formal analysis, Investigation, Methodology, Resources, Supervision, Validation, Writing - review & editing. Steven M.V. Gwynne: Conceptualization, Funding acquisition, Investigation, Methodology, Resources, Supervision, Validation, Writing - review & editing. Amanda Kimball: Conceptualization, Funding acquisition, Investigation, Methodology, Project Administration, Resources, Supervision, Validation, Writing - review & editing. Noureddine Bénichou: Conceptualization, Funding acquisition, Investigation, Methodology, Resources, Supervision, Validation, Writing - review & editing. Enrico Ronchi: Conceptualization, Formal analysis, Funding acquisition, Investigation, Methodology, Resources, Supervision, Validation, Writing - original draft, Writing - review & editing Acknowledgements This work has been funded under award 60NANB20D191 from the National Institute of Standards and Technology (NIST), U.S. Department of Commerce. The authors would like to thank the WUI-NITY team (Guillermo Rein, Nikolaos Kalogeropoulos, Harry Mitchell, Max Kinateder, Maxime Berthiaume). The authors also acknowledge the technical panel of the project for their support and guidance: Carole Adam, Amy Christianson, Tom Cova, Lauren Folk, Abishek Gaur, Paolo Intini, Justice Jones, Bryan Klein, Chris Lautenberger, Ruggiero Lovreglio, Jerry McAdams, Ruddy Mell, Elise Miller-Hooks, Cathy Stephens, Steve Taylor, Sandra Vaiciulyte, Xilei Zhao, Rita Fahy, Lucian Deaton, and Michele Steinberg.

opencc-by-4.0Dec 2021View details →

3D Charged Particles Dataset - Roto-translated Local Coordinate Frames for Interacting Dynamical Systems

This repository contains the "3D charged particles" dataset from the paper <blockquote> Roto-translated Local Coordinate Frames for Interacting Dynamical Systems <a href="https://mkofinas.github.io/">Miltiadis Kofinas</a>, <a href="https://menaveenshankar.github.io/">Naveen Shankar Nagaraja</a>, <a href="https://egavves.com/">Efstratios Gavves</a> NeurIPS 2021 <a href="https://arxiv.org/abs/2110.14961">https://arxiv.org/abs/2110.14961</a> <a href="https://github.com/mkofinas/locs">https://github.com/mkofinas/locs</a> </blockquote> It contains simulations of trajectories of 5 charged particles in 3 dimensions, interacting via Coulomb forces. There are 30,000 simulations for training, 5,000 for validation, and 5,000 for testing. Train and validation simulations last for 99 timesteps, while test simulations last for 99 timesteps. The features comprise positions and velocities of particles, while edges describe the product of pairwise charges.

Residual dynamics resolves recurrent contributions to neural computation

This repository contains all the neural and simulated datasets used in the above publication. All the data are stored as .mat files. This repository is organized into three main folders. For ease of use, we recommend extracting the contents of each of the three folders into a single folder titled ‘data’. <ol> <li>neuraldata –Raw and preprocessed neural data. Organized into the following folders: <ol> <li>array_TDR_dotsTask_data – contains the non-processed neural data of each session for both monkeys</li> <li>array_dotsTask_beh_xx – contains the behavioral data of each session for both monkeys (xx = monkey)</li> <li>array_reppasdotsTask_datasegmented_binsize=xxms – contains the pre-processed neural data (session wise) of both monkeys for a specified bin size (xx = bin size)  </li> </ol> </li> <li>simulations – Data from the simulated models. Organized into the following folders: <ol> <li>toymodels – Simulated data from all models of decisions/movement. Also includes simulations of the augmented line attractor and rotational dynamics models.</li> <li>twoarearnn – Simulated data from the two types of (feedback and nofeedback) two-area RNN models, along with the impulse response simulations.  </li> </ol> </li> <li>analyses – contains processed data files from various stages of the analysis pipeline. Only the most important files are listed below: <ol> <li>xx_aligned_reppasdotsTask_binsize=45ms.mat – session-aligned neural data for a specified monkey (xx = monkey)</li> <li>xx_ndim=8_lag=3_alpha=200_50_allconfigsresdynresults.mat – contains the residual dynamics for a specified monkey.</li> <li>xx_aligned_hankelagdimCV_reppasdotsTask_binsize=45ms.mat and xx_aligned_smoothnessCV_reppasdotsTask_binsize=45ms.mat – results of cross-validation of the residual dynamics pipeline for a specified monkey (xx = monkey)</li> </ol> </li> </ol>

UAV data of post fire dynamics, Quesenbank, Harz, 2022 (orthomosaics, topography, point clouds)

Unoccupied aerial vehicles (UAVs) were used to investigate a burnt forest site situated in the Harz National Park area near the location Schierke, east of the Brocken, called Quesenbank (<a href="https://www.google.com/maps/place/51%C2%B046'07.6%22N+10%C2%B041'30.2%22E/@51.7682386,10.6905312,489m/data=!3m1!1e3!4m5!3m4!1s0x0:0xd8d7f64a3ff9acf1!8m2!3d51.76877!4d10.69173">51.76877 °N, 10.69173 °E</a>) which is a spruce stand stand severely affected by bark-beetle and windfall. Most of the trees are dead such that they provide high fuel loads for potentially occurring wildfires. The small river Wormke crosses the Quesenbank and separates the survey area between a hiking path and the forest stand. During the 12.08.2022, inhabitants reported a <a href="https://www.ndr.de/nachrichten/niedersachsen/braunschweig_harz_goettingen/Waldbrand-im-Harz-Polizei-geht-von-Brandstiftung-aus,waldbrand882.html">fire</a> near Schierke which was quickly contained by the authorities. Two months after the fire, on 13.10.2022, a team of scientists from GAU Göttingen and TU Berlin was accompanied by a National Park representative for investigation. The site was surveyed by using modern UAVs and by sampling soil strata, ash and vegetation. This report will briefly describe UAV-based surveys and the derived data products. For an overview, see the report or download the Maps.zip folder.   Acknowledgements Projekt ”Postfeuerdynamik auf Brandflächen im Nationalpark Harz” Dr. Simon Drollinger, Georg-August Universität Göttingen Marlene Düngelhoef, Nationalparkverwaltung Harz Thomas Glinka, Nationalparkverwaltung Harz

2D LSFM timelapse of cardiomyocyte calcium dynamics

Uploaded zip-folder contains the following files: 1. A representative raw dataset of a 2D LSFM ventricular cardiomyocyte undergoing stimulated calcium transients and calcium sparks (frame_0000.tif -frame_17999.tif) 2. The recorded pacing signal time trace (waveform_test.xslx) 3. Image corresponding to the time-averaged background (AVG_19_35_39_LowNA rolling shutter.tif) 4. Pre-processed nuclear mask matrix (NuclearMask.mat), CMO-channel average (CMO_Average.mat), and CMO channel maximum intensity projection (CMO_MIP).  5. Split and co-registered data for each spectral channel (CMO_frame_00001.tif-CMO_frame_18000.tif, FLUO4_frame_00001.tif -FLUO4_frame_18000.tif). Compressed file size: 14.9 GB Uncompressed file size: 42.8 GB.  Related to the following manuscript:  Liuba Dvinskikh, Hugh Sparks, Ken MacLeod and Chris Dunsby " High-speed 2D light-sheet fluorescence microscopy enables quantification of spatially varying calcium dynamics in ventricular cardiomyocytes" (2023), In review with Frontiers in Physiology, Cardiac Electrophysiology.

Arbitrage equilibrium, invariance and the emergence of spontaneous order in the dynamics of birds flocking

This is the dataset used to report the findings in the paper "Arbitrage equilibrium, invariance and the emergence of spontaneous order in the dynamics of birds flocking".

Drivers of spatial and temporal micro- and mesozooplankton dynamics in an estuary under strong anthropogenic influences (The Eastern Scheldt, Netherlands)

Supplement to: Horn, H.G., van Rijswijk, P., Soetaert, K., van Oevelen, D. (2023): Drivers of spatial and temporal micro- and mesozooplankton dynamics in an estuary under strong anthropogenic influences (The Eastern Scheldt, Netherlands). J Sea Res. <a href="https://doi.org/10.1016/j.seares.2023.102357">https://doi.org/10.1016/j.seares.2023.102357</a> This data set contains mesozooplankton and microzooplankton abundances, temperature, salinity, O2, DOC, Chl.a, SPM, and nutrient concentrations from eight stations in the Eastern Scheldt sampled in 2018. Phytoplankton growth and microzooplankton grazing rates from dilution experiments are also provided.

Controllable temporal dynamics of titanium oxide memristor for analog time-based neuromorphic computing: Dataset

Dataset used to produce graphs related to the temporal behavior of the Pt/TiO/Au memristors.

opencc-by-4.0Feb 2023View details →

Spatiotemporal dynamics in freshwater amphipod assemblages are associated with surrounding terrestrial land use type - Dataset

Biological assemblages are the result of dynamic processes that have explicit temporal and spatial dimensions. While biodiversity patterns can be directly inferred from the structure of these assemblages, an assessment of changes through time and space is needed to understand how organisms initially assembled and how they are responding to local environmental and biotic factors. Small freshwater streams are particularly affected by contemporary anthropogenic activities and biological invasions, yet are commonly less studied, as studies often focus on lakes and large streams. Here, we conducted a spatially explicit analysis of keystone shredder assemblages across eight years in twelve replicated small tributary streams. In each stream, we monitored multiple sites per km stream length. By assessing temporal beta diversity dynamics, defined by the gain or loss of species or abundance-per-species at individual sites, we show that changes in amphipod assemblages occur within the context of the surrounding terrestrial matrix and reflect recent amphipod colonization history. While amphipod composition was mostly constant in streams located in forested catchments, streams embedded in catchments with more extensive agricultural land use displayed more pronounced temporal changes, either driven by colonization of unoccupied upstream locations, or by more pronounced but undirected fluctuations in gains and losses of species or abundance-per-species. Our study thus suggests that agricultural landscapes might destabilize aquatic amphipod assemblages, causing higher temporal changes in community structures, and highlighting the vulnerability of aquatic ecosystems to terrestrial land use drivers.

opencc-by-4.0Feb 2023View details →

Data related to the article "Frequency-dependent impedance of nanocapacitors from electrode charge fluctuations as a probe of electrolyte dynamics"

Contains input files and data used to generate the figures of the article: Frequency-dependent impedance of nanocapacitors from electrode charge fluctuations as a probe of electrolyte dynamics (Giovanni Pireddu and Benjamin Rotenberg) arXiv: https://arxiv.org/abs/2206.13322 The folder EXAMPLE_INPUT_FILES contains typical <a href="https://doi.org/10.21105/joss.02373">MetalWalls</a> (<a href="https://gitlab.com/ampere2/metalwalls">repository</a>) input files used to perform the simulations. The folder DATA_FIGURES contains the processed data used to plot all the figures of the paper (see below).   The 'd*' labels are used in the directory or file names to refer to the following interelectrode distances considered: - 'd1' corresponds to 2.51 nm; - 'd2' corresponds to 4.94 nm; - 'd3' corresponds to 9.76 nm; - 'd4' corresponds to 19.42 nm; Figure 1: - 'Fig1_Continuum.dat':         -  Capacitance calculated considering a continuum approximation - 'Fig1_DDS.dat':     -  Capacitance calculated considering the DDS model (three capacitors in series) - 'Fig1_MD.dat':     -  Capacitance calculated from MD simulations. Includes the capacitance of the empty capacitor. Figure 2: Panel A - 'Fig2_QACFd*.dat':     - Time autocorrelation function of the electrode charge fluctuations Panel B - 'Fig2_Qrampd*.dat':     - Charge profile upon a step in voltage (0 to 1 V) - 'Fig2_Vramp.dat':     - Voltage ramp related to the charging profiles Panel C - 'Fig2_QACFNormd*.dat':     - Normalized charge autocorrelation function -'Fig2_QrampNormd*.dat'     - Normalized charge profile Figure 3: - 'Fig3_MDd*.dat':     - Real and imaginary parts of impedance as estimated from MD simulations - 'Fig3_ECd*.dat'     - Real and imaginary parts of impedance as calculated from the equivalent circuit models Figure 4: - 'Fig4_MDd*.dat':     - Magnitude of admittance as estimated from MD simulations - 'Fig4_Debyed*.dat':     - Magnitude of admittance as calculated from the Debye relaxation model Inset - 'Fig4_MDTau.dat':     - Relaxation time estimated from MD simulations - 'Fig4_TauFit.dat':     - Fit of the relaxation time

opencc-by-4.0Nov 2022View details →

Datasets supplementing journal article "Probing dynamic covalent chemistry in a 2D boroxine framework by in-situ near-ambient pressure X-ray photoelectron spectroscopy" in Nanoscale 2022

Datasets supporting the Nanoscale journal article "Probing dynamic covalent chemistry in a 2D boroxine framework by in-situ near-ambient pressure X-ray photoelectron spectroscopy". NAP-XPS.zip: Near-ambient pressure X-ray photoelectron spectroscopy, Figures 2, 3. (NEP 101007417) STM.zip: Scanning tunneling microscopy, Figure 5a, inset. (NEP 101007417) TPD.zip: Temperature programmed desorption, Figure 1a. UHV-XPS.zip: X-ray photoelectron spectroscopy, Figure 1b,c. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No 101007417, having benefited from the access provided by by ALBA in Barcelona (Spain) and CNR-IOM in Trieste (Italy) within the framework of the NFFA-Europe Pilot Transnational Access Activity, proposal ID075.

opencc-by-4.0Feb 2023View details →

Data of publication: "Collective atom-cavity coupling and nonlinear dynamics with atoms with multilevel ground states"

The uploaded files contain the raw data of the measurements and simulations presented in <a href="https://doi.org/10.1103/PhysRevA.107.023714">https://doi.org/10.1103/PhysRevA.107.023714</a>

opencc-by-4.0Aug 2022View details →

Supplementary data for: "The influence of reef isostasy, dynamic topography, and glacial isostatic adjustment on the Last Interglacial sea-level record of Northeastern Australia"

This repository contains supplementary information and data for the paper: ""The influence of reef isostasy, dynamic topography, and glacial isostatic adjustment on the Last Interglacial sea-level record of Northeastern Australia", submitted to Communications Earth & Environment. This version (1.1) was produced to answer comments from reviewers.

opencc-by-4.0Mar 2023View details →

Research data supporting: "Unsupervised Data-Driven Reconstruction of Molecular Motifs in Simple to Complex Dynamic Micelles"

This repository contains the set of data shown in the paper "Unsupervised Data-Driven Reconstruction of Molecular Motifs in Simple to Complex Dynamic Micelles", published on The Journal of Physical Chemistry B (DOI:10.1021/acs.jpcb.2c08726).

opencc-by-4.0Mar 2023View details →

Static and Dynamic DFT Data Sets for Polymorphs of l-Cysteine - Stability and Terahertz Spectra

Data sets associated with static and dynamic density functional calculations are reported for the four known polymorphs of l-cysteine and for models associated with the known disorder in Form I..  Static calculations are used to explore the relative free energies (within the harmonic approximation) of the polymorphs as a function of pressure.  The energetics for dihedral angle rotation are explored and the barriers for rotation between the hydrogen bonding motifs have been calculated for each polymorph. Molecular dynamics calculations are reported for each polymorph and for models of hydrogen bond disorder which are known to exist at higher temperatures. Finally static and dynamic calculations of the infrared and terahertz spectra are performed.

Binding site plasticity regulation of the FimH catch-bond mechanism: Molecular Dynamics dataset

Dataset of Molecular Dynamics simulations and analysis scripts used in the article "Binding site plasticity regulation of the FimH catch-bond mechanism" [<a href="https://doi.org/10.1016/j.bpj.2023.05.029">paper</a>][<a href="https://doi.org/10.1101/2022.11.15.516604">bioRxiv</a>]. Contains: <ul> <li>Replica Exchange with Solute Scaling (REST2) simulations of the FimH protein lectin domain in its two main allosteric states (Associated and Separated), in presence and absence of its synthetic ligand heptyl α-ᴅ-mannose (input files and trajectories of the unscaled replicas)</li> <li>Replica Exchange Umbrella Sampling (REUS) simulations of the liganted systems along a collective variable (CV) describing binding site opening (input files and trajectories)</li> <li>REUS simulations in presence of a pulling force on the protein-ligand complex.</li> </ul> See the article for more details.

Dynamically coupled kinetic chemistry in brown dwarf atmospheres I. Performing global scale kinetic modelling

Gifs and Exo-FMS GCM output from the 3D brown dwarf atmospheric simulations in Lee, Tan and Tsai (2023).  Animated gifs for each effective temperature (Teff - first number in filename) of the brown dwarf (OLR and CH4 VMR). The gifs frames are every hour of simulation for 4 simulated days. Exo-FMS GCM output in netCDF format containing the 3D T-p structure and chemical results from the coupled mini-chem and GCM model for each Teff simulation (number in filename). `average' is the averaged output of the last 100 days. `daily' is the snapshot at the end of the simulation.

Video demonstrating dynamic calibration procedure

Video recording shows dynamic calibration procedure, developed in the frameworks of ComTraForce project. The calibration was performed at the facilities of RISE Research Institutes of Sweden.

Summary of Input from Stakeholders and other institutions involved in dynamic force applications

Survey data used to create Deliverable 1 of ComTraForce project "Roadmap detailing the future requirements for improved force transfer standards and associated calibration methods for force testing machines taking into account realistic uncertainties".