Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
567
datasets available to search
ShareScore release 0.9.0
Dataset results
567 results for “Simulated datasets”
Simulated multi-omic dataset including DNA methylation, proteins and metabolites
<p>Dataset simulated for use in a short course in molecular epidemiology.</p> <p> </p>
Simulating biosignatures from pre-oxygen photosynthesising life on TRAPPIST-1e [Dataset]
<p>Dataset for Simulating biosignatures from pre-oxygen photosynthesising life on TRAPPIST-1e, published in MNRAS</p>
Dataset used for "End-to-end simulation of particle physics events with Flow Matching and generator Oversampling" , https://arxiv.org/abs/2402.13684
Open the record for dataset details and reuse information.
Dataset belonging to SNF project: Use of physiologically based pharmacokinetic modelling to simulate dosing requirements of long-acting intramuscular antiretroviral drugs in special populations and to manage drug-drug interactions
Open the record for dataset details and reuse information.
Dataset - SuperGrad: a differentiable simulator for superconducting processors
<p>This data set contains the original data related to Figure 3,4,7,8,9 and a new qubit type showcase about <span>Fluxoniums mediated by Transmon cou</span><span>plers (FTF) structure associated with the SuperGrad library. </span></p>
MDD-Molecular Dynamics Dataset: Collection of protein-ligand complex simulations
<p>Dataset is part of the paper: https://chemrxiv.org/engage/chemrxiv/article-details/664c73f6418a5379b0de8152.</p> <p>This dataset consists of molecular dynamics (MD) simulations of 862 unique protein-ligand complexes, covering a wide range of protein families and diverse chemical classes of ligands. It is derived from publicly available repositories and represents the largest single source of MD simulations to date.</p> <p>All protein-ligand complexes included in the dataset were prepared following a standardized protocol. Missing atoms in the protein structures were added using the PDBFixer tool. The protein targets were parameterized using the AMBER99SB-ILDN force field, while ligands were parameterized with the ANTECHAMBER module within the ACPYPE tool. Ligand partial charges were determined to match the quantum-mechanically generated electrostatic potential via the Restrained Electrostatic Potential (RESP) method, and the remaining parameters were set using the GAFF2 force field. The molecular dynamics simulations were performed using GROMACS. The simulations were configured in a cubic simulation box with periodic boundary conditions and employed a TIP3P water model within an electrostatically neutral environment. The simulation protocol included an initial minimization cycle, followed by temperature equilibration in the NVT ensemble and pressure equilibration in the NPT ensemble. Production simulations were conducted over a period of 200 ns, with a timestep of 100 ps.</p> <p>Constructing a large, representative set of MD simulations poses challenges due to the high computational costs and complexities associated with preparing molecular systems. Moreover, given the limited number of suitable training examples (complexes) and the large volume of MD data from each simulation, careful filtering and feature selection are crucial. This dataset is valuable for exploring how molecular dynamics simulation data can be integrated with protein-ligand binding affinity prediction tasks, an essential component of in silico drug discovery pipelines. MD simulations, in particular, offer a dynamic view by illustrating the temporal interactions within protein-ligand complexes, potentially providing additional insights for affinity and specificity estimates.</p>
Dataset - Flux Profile Optimization of a High-Flux Solar Simulator Using the Trust-Region Reflective Method
<p>This dataset accompanies</p> <p>DOI: 10.1080/14786451.2024.2355651</p> <p>Title: Flux Profile Optimization of a High-Flux Solar Simulator Using the Trust-Region Reflective Method</p> <p>Authors: Mohammed Hamid Hussain</p> <p>Journal: International Journal of Sustainable Energy</p> <p> </p>
Supplementary material - Blind comparison of binaural auralisations to a real loudspeaker in an audiovisual virtual classroom scenario: Effect of room acoustic simulation, HRTF dataset and head worn devices on rated room-acoustical attributes
<p>Additional Material for the paper "Blind comparison of binaural auralisations to a real loudspeaker in an audiovisual virtual classroom scenario: Effect of room acoustic simulation, HRTF dataset and head worn devices on rated room-acoustical attributes".</p> <p> </p> <p>This work is funded by the German Research Foundation (Deutsche Forschungsgemeinschaft, DFG) under the project ID 422686707, SPP2236 – AUDICTIVE – Auditory Cognition in Interactive Virtual Environments</p>
Translational recoding by chemical modification of non-AUG start codon bases: Simulation dataset
<p>Dataset of molecular dynamics simulations for RNA binding in ribosomal pre-initiation complex.<br> NAMD version 2.13 (multi-core) was used for the simulations.</p>
Datasets and simulation programs for the thesis 'Terahertz-Induced Dynamics in Strongly Correlated and Magnetic Materials'
<p>This dataset contains all the data and programs used to create the results in my thesis 'Terahertz-Induced Dynamics in Strongly Correlated and Magnetic Materials'.</p> <p>It is separated into individual chapters. Each chapter contains the data inside the figures, the raw data, if applicable, a program file, and a readme.txt offering additional information.</p>
Dataset for the study "Deep Learning-Based Precipitation Simulation for Different Types of Weather Events in Eastern China"
<p>This dataset contains the data and codes used in the study "Deep Learning-Based Precipitation Simulation for Different Types of Weather Events in Eastern China". The resources will be updated continously.</p>
The dataset used in numerical simulations based on the resistivity structure of Kusatsu-Shirane Volcano, Japan
<p>The dataset used in the numerical simulations based on the resistivity structure of Kusatsu-Shirane Volcano, Japan. </p> <p>Descriptions of included files:</p> <p><strong>TOUGH_model.zip</strong></p> <p>The data used in the numerical simulations by the TOUGH3 code. It includes ten cases with different permeability structures considered.</p> <p><strong>HT_model.zip</strong></p> <p>The data used in the numerical simulations by the HYDROTHERM code. It includes seven cases with different permeability structures considered.</p>
'Reconciling Surface Deflections From Simulations of Global Mantle Convection' : Numerical model dataset
<p><strong>Output data from TERRA simulations included in 'Reconciling Surface Deflections From Simulations of Global Mantle Convection'</strong></p> <p>Dataset includes:</p> <ul> <li>Full density field (`NC_visc_dens_037.tar.gz`)</li> <li>Radial stresses (directory `radial_stresses`)</li> <li>Spherical harmonic coefficients for density field (`density_sph.037`)</li> <li>Radial viscosity factors (`visc.dat`)</li> </ul> <p>Radial stresses are calculated at depths of:</p> <ul> <li>0 km (surface)</li> <li>45 km</li> <li>180 km</li> <li>270 km</li> </ul> <p>and with various amounts of shallow structure removed:</p> <ul> <li>NC_DT_rmir0 - No shallow structure removed</li> <li>NC_DT_rmir1 - 45 km removed</li> <li>NC_DT_rmir2 - 90 km removed</li> <li>NC_DT_rmir3 - 135 km removed</li> <li>NC_DT_rmir5 - 225 km removed</li> <li>NC_DT_rmir7 - 270 km removed</li> </ul>
DynToy simulated scRNA-seq datasets
Open the record for dataset details and reuse information.
Simulated Dataset-prenatal smoking and asthma
<p>This dataset is a simulated dataset to explore and contrast Fine and Gray method with cause-specific Cox-Proportional hazards method. Please contact the author for publishing purposes. The accompanying program is a sas code that we used to fit the Fine and Gray and cause specific Cox -PH regression.</p>
Dataset for "Particle-in-cell simulations of the fast magnetosonic mode in a dipole magnetic field: 1D along the radial direction"
<p>Dataset used to produce figures in the paper "Particle-in-cell simulations of the fast magnetosonic mode in a dipole magnetic field: 1D along the radial direction"</p>
Exploration of the influence of environmental conditions on secondary organic aerosol formation and organic species properties using explicit simulations: development of the VBS-GECKO parameterization [Dataset]
<p>This dataset is composed of simulation outputs of the GECKO-A model that were used to optimize the VBS-GECKO SOA parameterization as described in the study :<br> <br> Lannuque, V., Camredon, M., Couvidat, F., Hodzic, A., Valorso, R., Madronich, S., Bessagnet, B., and Aumont, B.: Exploration of the influence of environmental conditions on secondary organic aerosol formation and organic species properties using explicit simulations: development of the VBS-GECKO parameterization, Atmos. Chem. Phys., https://doi.org/10.5194/acp-18-1-2018, 2018.<br> <br> <strong>Please cite the original ACP article when using these data in a publication.</strong></p> <p><br> The paper also contains more information about how these data were obtained.<br> <br> The "readme.txt" file gives quick explanations on how the dataset is formatted and how to read the different files that compose it.<br> <br> Victor Lannuque</p>
The simulation dataset of GRIPT: a novel case-control analysis method for Mendelian disease gene discovery
<p>The simulation dataset of GRIPT: a novel case-control analysis method for Mendelian disease gene discovery</p> <p>To uncompress the data:</p> <p>tar -xvf Simulation_data.tar.gz</p> <p>The meaning of the datasets:</p> <p>sim_X_Y.tar.gz means the simulation is generated with the maximum population frequency cutoff of X and the sample size of Y.</p> <p>sim_X_Y.tar.gz is generated based on the average allele frequency in population.</p> <p>sim_X_Y_AMR.tar.gz is generated based on the allele frequency in Latino population.</p> <p>sim_X_Y_500_Z.tar.gz is mixed of Latino population with a proportion of (500-Z)/500, and African population with a proportion of Z/500.</p> <p>The allele frequency is based on the ExAC database (Lek et al Nature 2016)</p> <p>Within each folder, there are case or control folders. The case folder contains the simulation spiked in the HGMD mutation of the given gene (i.e. RPE65 or TINF2) in the given percentage of individuals (e.g. 0.5%, 1%, 2%, 3%). The control folder contains the simulation without HGMD mutation spiked in.</p>
Dataset for paper "Equatorial propagation of the magnetosonic mode across the plasmapause: 2-D PIC simulations"
<p>Dataset used to produce figures in the paper "Equatorial propagation of the magnetosonic mode across the plasmapause: 2-D PIC simulations"</p>
Dataset: Language and semantic processing in blind and sighted individuals. A simulation study
<p>-------------------<br> GENERAL INFORMATION<br> -------------------</p> <p>1. Title of Dataset <br> <br> Dataset_SimulationsOutput_BlindvsSightedModels<br> <br> 2. Author Information</p> <p>This dataset is being made public to act as supplementary data for publication. Running title: </p> <p>R. Tomasello, M. Garagnani, T. Wennekers, and F. Pulvermüller, Recruitment of visual cortex for language processing in blind individuals is explained by Hebbian learning.</p> <p> Corresponding author:<br> Name: Rosario Tomasello <br> Institution: Brain Language Laboratory, Freie Universität Berlin<br> Address: Habelschwerdter Allee 45, 14195 Berlin<br> Email: Tomasello.r@fu-berlin.de</p> <p>--------------------------<br> RESEARCH PROJECT & METHODOLOGICAL INFORMATION<br> --------------------------</p> <p>The data were generated by a neurobiologically constrained cortex model of the fronto-temporal-occipital lobes applied to simulate word meaning acquisition of object- and action-related words in action and perception system under undeprived and visually deprived conditions. The purpose of this study was to investigate how and why the visual system is recruited for language processing in blind individuals, as documented by neurocognitive empirical experiments.</p> <p>The files listed above shows the cell assemblies (CA) distributions across the different cortical areas spontaneously emerged as a result of Hebbian learning. For more information about the general features of the model see our previous publications:</p> <p>R. Tomasello, M. Garagnani, T. Wennekers, and F. Pulvermüller, (2018) A Neurobiologically Constrained Cortex Model of Semantic Grounding With Spiking Neurons and Brain-Like Connectivity, Front. Comput. Neurosci., vol. 12, p. 88.</p> <p>M. Garagnani, G. Lucchese, R. Tomasello, T. Wennekers, and F. Pulvermüller, (2017) A Spiking Neurocomputational Model of High-Frequency Oscillatory Brain Responses to Words and Pseudowords, Front. Comput. Neurosci., vol. 10, no. January, pp. 1–19.</p> <p><br> ---------------------<br> DATA & FILE OVERVIEW<br> ---------------------</p> <p><br> 1. File List<br> <br> Filename: CA_Structure_Blind VS SightedModel.xlsx (size 150KB) <br> <br> The excel file includes the cell assembly (CA) distributions of the learnt action and object words of both sighted and blind models along with their CA structure comparisons and the related figures. <br> <br> Folders: Raw_Data_SightedModel (size 6KB) & Raw_Data_BlindModel (size 6KB)<br> <br> These folders include the raw data output of the CA structure of the 13 sighted and 13 blind simulated models after word meaning acquisition. </p>
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.