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10,735 results for “dependencies”
Correspondence of the natural oscillation frequencies of perforated plates depending on the type of holes, plate material and thickness, type of fixing (CCCS or CSCS)
<p>The method involved the analysis of oscillations of base plates: solid non-perforated and with round holes, as well as perforated plates with holes of complex geometry in the form of a five-petal epicycloid.</p> <p>As a result of the modeling (Abaqus), the natural oscillations frequencies of the studied plates were obtained depending on the type of perforation, material, thickness and type of their fixing. The use of different materials (steel and aluminium) showed an insignificant influence on the natural oscillation frequency of the plates. It was found that the plate thickness has the greatest influence (31.85– 33.35%), the following are the hole parameters: partition width between holes; pitch between hole centers.</p> <p>Analysis of the results showed that the natural vibrations of plates with holes of complex geometry differ by up to 7% compared to plates with basic round holes. </p>
Dataset: Electrolyte-dependent deposition morphology on magnesium metal utilizing MeMgCl, Mg[B(hfip)4]2 and Mg(HMDS)2–2AlCl3 electrolytes
<p>This is a collection featuring the data generated and used within the paper: 'Electrolyte-dependent deposition morphology on magnesium metal utilizing MeMgCl, Mg[B(hfip)4]2 and Mg(HMDS)2–2AlCl3 electrolytes'. The deposition behavior of two state-of-the-art electrolytes, magnesium tetrakis(hexafluoroisopropyloxy)borate (Mg[B(hfip)~4~]~2~) in dimethoxyethane (DME) and magnesium bis(hexamethyldisilazide) with two equivalents of aluminum chloride (Mg(HMDS)~2~-2AlCl~3~) in tetrahydrofuran (THF) was investigated. Using symmetric flooded magnesium-magnesium cells with different electrolyte concentrations and current densities the deposition process was monitored optically in-situ by a video microscope. The depositions were characterized by scanning electron microscopy (SEM) and energy dispersive X-ray spectroscopy (EDX) and compared to depositions from methylmagnesium chloride (MeMgCl) in THF, known for its dendritic growth. In this work, MeMgCl showed unidirectional growth and for the harshest applied conditions, mossy depositions, but no branching dendrites as reported in previous literature. Mg[B(hfip)~4~]~2~ and Mg(HMDS)~2~-2AlCl~3~ did not show the formation of dendrites or a dendrite preform but also did not result in a desired smooth layer but in spherical depositions. For the Mg[B(hfip)~4~]~2~ electrolyte, the influence of magnesium borohydride (Mg(BH~4~)~2~) as an additive was additionally tested resulting in a more planar growth.</p>
Data package supporting manuscript "Widespread Heterogeneity in Density-Dependent Mortality of Nearshore Fishes"
This repository contains the complete data synthesis and analysis pipeline for a global meta-analysis on density-dependent mortality in reef fishes. We estimated mortality parameters (α and β) from >30 ecological studies and explored how ecological traits, experimental methods, and phylogenetic history explain variation in density dependence. It comprises eight data tables in csv format, three .tre files for phylogenetic trees (see method document for data sources), and the zipped code folder (including 12 R scripts) to ensure transparent, end-to-end reproducibility of data processing, analysis, and visualization. This package supports the manuscript “Widespread Heterogeneity in Density-Dependent Mortality of Nearshore Fishes” by Stier & Osenberg (Ecology Letters).
Fedora and Debian software package dependency networks along with description text associated with nodes
<p>Fedora (version 28) and Debian (version 9.5) software package dependency networks along with description text associated with nodes. Also includes learned vectors by using PCTADW-* as in "Kexuan Sun, Shudan Zhong, and Hong Xu. 2020. Learning Embeddings of Directed Networks with Text-Associated Nodes---with Application in Software Package Dependency Networks. 2020 BigGraphs Workshop at IEEE BigData 2020."</p>
Strong sequence dependence in RNA/DNA hybrid strand displacement kinetics supplementary data and code
<p>Supplementary data and code needed to replicate figures and results for the paper: Strong sequence-dependence in RNA/DNA hybrid strand displacement kinetics - Francesca G. Smith, John P. Goertz, Molly M. Stevens and Thomas E. Ouldridge. README is included to explain each folder and file in the repository.</p>
Temperature-dependent fold-switching mechanism of the circadian clock protein KaiB
<p>Derived data accompanying publication of <em>Temperature-dependent fold-switching mechanism of the circadian clock protein KaiB</em> (Zhang et al., PNAS 2024).</p> <p> </p> <p>This dataset contains data for fold-switching of KaiB from simulations performed using the Upside coarse-grained model (Jumper et al. PLoS Comput. Bio 2017). Files contained include collective variables, kinetic quantities (committors), and initial structures used to seed unbiased simulations. These data should be sufficient recreate the analysis shown in the associated publicaion. Raw trajectory files have not been deposited due to their size; contact the author (Spencer Guo) to request.</p>
Coverage-Dependent Stability of RuxSiy on Ru(0001): A Comparative DFT and XPS Study
<p>This repository contains the library of computational structures generated and used for our study "<span>Coverage-dependent stability of Ru<sub><span>x</span></sub>Si<sub><span>y</span></sub> on Ru(0001): a comparative DFT and XPS study</span>" (<a title="Link to landing page via DOI" href="https://doi.org/10.1039/D4CP04069D">https://doi.org/10.1039/D4CP04069D</a>). The final processed data is compiled into a single ASE-compatible database file (https://wiki.fysik.dtu.dk/ase/ase/db/db.html), `RuSi-PCCP-Data.db`.<br><br></p> <p> </p>
Code Analysis Tables for Developers Interviews on Dependencies Paper
<p>Code Analysis Tables for the ACM CCS 2020 paper "A qualitative study of dependency management and its security implications"</p>
Characterization of the angular-dependent emission of nitrogen-vacancy centers in nanodiamond
<p>We report on the characterization of the angular-dependent emission of single-photon emitters based on single nitrogen-vacancy (NV-) centers in nanodiamond at room temperature. A theoretical model for the calculation of the angular emission patterns of such an NV-center at a dielectric interface will be presented. For the first time, the orientation of the NV-centers in nanodiamond was determined from back focal plane images of NV-centers and by comparison of the theoretical and experimental angular emission pattern. Furthermore, the orientation of the NV-centers was also obtained from measurements of the fluorescence intensity in dependence on the polarization angle of the linearly polarized excitation laser. The results of these measurements are in good agreement. Moreover, the collection efficiency in this setup was calculated to be higher than 80% using the model of the angular emission of the NV-centers.</p>
Sub-10 nm size-distribution data for "What controls the observed size-dependency of the growth rates of sub-10 nm atmospheric particles?"
<pre>Size-Distribution data from the CERN CLOUD experiment (Kirkby et al., 2011) measured with a DMA-train (Stolzenburg et al., 2017) Data acquired during the CLOUD10 (Fall 2015) and CLOUD12 (Fall 2017) campaigns. Data associated with the publication Kontkane et al. (2022). File name indicates the Experiment number as specified in Table 3, Kontkanen et al. (2022) and the internal CLOUD run numbers as given in Table S1, Kontaknen et al. (2022). Concentration of precursor gases are also given in these two Tables. Exp. 8 only used data from NAIS and is not included in this repository. Header indicates the diameter at which the size-distribution is measured. First column is time column with areadable timestamp in the format %Y-%m-%d %H:%M:%S. Data is dN/dlog_10 dp in unit cm^(-3). Full size-distribution (up to 400 nm) can be obtained from the author upon request. References: Kontkanen et al. (2022), What controls the observed size-dependency of the growth rates of sub-10 nm atmospheric particles?, Environ. Sci.: Atmos., accepted. Kirkby et al. (2011), Role of sulphuric acid, ammonia and galactic cosmic rays in atmospheric aerosol nucleation, Nature, 476, 429-433, http://dx.doi.org/10.1038/nature10343 Stolzenburg et al. (2017), A DMA-train for precision measurement of sub-10nm aerosol dynamics, Atmos. Meas. Tech., 10, 1639-1651, http://www.atmos-meas-tech.net/10/1639/2017/ </pre>
Data files for Competitive ability depends on mating system and ploidy level across Capsella species
<p>The three data files associated with the article:</p> <p>Competitive ability depends on mating system and ploidy level across Capsella species. Annals Of Botany 2022: doi.org/10.1093/aob/mcac044</p> <p>See README for details on each files</p>
Dependencies in DevOps Survey 2021
<p>While various empirical studies on the application of DevOps in practice exist, the state of application dependencies and their impact on the order of deployments has not been assessed yet. Such insight would indicate whether independent, cross-functional DevOps teams may deploy their applications independently or whether they need to coordinate. Further, in case coordination is required, we do not yet have insight into how such coordination is accomplished.</p> <p>To fill this gap, we perform a cross-sectional, self-administered, online questionnaire survey with IT professionals. This report documents the survey until April 15, 2021, including the analysis of the collected data. Further, we provide the dataset and the scripts for the paper and this report.</p> <p><strong>Contents</strong></p> <ul> <li>README.md: Overview and instructions on how to use this artifact.</li> <li>report.pdf: Survey report providing documentation, results and analysis of the survey until April 15, 2021.</li> <li>survey-data.csv: Survey dataset until April 15, 2021.</li> <li>analysis.zip: Analysis scripts for all statements and generation of all contents of report.pdf. Also includes the dataset and report.</li> </ul> <p> </p>
Technical Leverage Dataset for Java Dependencies in Maven
<p>In finance, leverage is the ratio between assets borrowed from others and one's own assets. A matching situation is present in software: by using free open-source software (FOSS) libraries a developer leverages on other people's code to multiply the offered functionalities with a much smaller own codebase. In finance as in software, leverage magnifies profits when returns from borrowing exceed costs of integration, but it may also magnify losses, in particular in the presence of security vulnerabilities. We aim to understand the level of technical leverage in the FOSS ecosystem and whether it can be a potential source of security vulnerabilities. Also, we introduce two metrics change distance and change direction to capture the amount and the evolution of the dependency on third-party libraries. Our analysis published in [1] shows that small and medium libraries (less than 100KLoC) have disproportionately more leverage on FOSS dependencies in comparison to large libraries. We show that leverage pays off as leveraged libraries only add a 4% delay in the time interval between library releases while providing four times more code than their own. However, libraries with such leverage (i.e., 75% of libraries in our sample) also have 1.6 higher odds of being vulnerable in comparison to the libraries with lower leverage.</p> <p>This dataset is the original dataset used in the publication [1]. It includes 8494 distinct library versions from the FOSS Maven-based Java libraries An online demo for computing the proposed metrics for real-world software libraries is also available under the following URL: https://techleverage.eu/.</p> <p>The original publication is [1]. An executive summary of the results is avialble as the publication [2]. This work has been funded by the European Union with the project AssureMOSS (https://www.assuremoss.eu).</p> <p>[1] Massacci, F., & Pashchenko, I. (2021, May). Technical leverage in a software ecosystem: Development opportunities and security risks. In <em>2021 IEEE/ACM 43rd International Conference on Software Engineering (ICSE)</em> (pp. 1386-1397). IEEE.</p> <p>[2] Massacci, F., & Pashchenko, I. (2021). Technical Leverage: Dependencies Are a Mixed Blessing. <em>IEEE Secur. Priv.</em>, <em>19</em>(3), 58-62.</p>
Dataset: Ensemble results comparing L-dependent radial diffusion
<p>Simulation data used in the creation of plots in "Two methods to analyse radial diffusion ensembles: the peril of space- and time- dependent diffusion".</p>
Generalization of a density-dependent ecosystem function in dominant aquatic macroinvertebrates
<div> <div> <p>This Zenodo record contains the supporting data and code for the publication 'Generalization of a density-dependent ecosystem function in dominant aquatic macroinvertebrates', published in Oikos (<a title="DOI to publication" href="https://doi.org/10.1111/oik.10774">https://doi.org/10.1111/oik.10774</a>). The data are described in detail in the corresponding publication. The data archive contains a ReadMe file, two text files with the empirical data, and a corresponding R script for analysis. All required data to reproduce the full analysis from the original publication are provided.</p> <p>In order to reproduce the analysis and figures, run <code>DensityDependenceAnalysis20240319.R</code>. Make sure that your working directory is the actual folder containing the data files <code>Data_Field.txt</code> and <code>Data_Lab.txt</code>. If run in Rstudio, this should happen automatically. Else this is easily achieved by (re)starting R (or R Studio) by double-clicking the R script file from the folder. The script will produce all the figures from the paper, organized in a folder <code>AnalysisYYYYMMDD</code> and two subfolders <code>CheckFigs</code> and <code>SuppFigs</code>. Figures are prepared as pixel graphics (PNG).</p> </div> </div>
Images and Crater Data for "Crater Detection Dependence on Resolution, Incidence Angle, Emission Angle, and Phase Angle"
<p>Images are from the LROC-NAC and have been cartographically controlled to each other and the <em>Apollo 11</em> landing site as described in Supporting Information Text S1. Images are cropped so that the cover ±0.025° from the landing site when coordinates have three significant figures. The images are provided as .png files with .pgw ("PNG World"). The images are at 1 mpp (contain a "1mpp" string in the file name), 2.5 mpp (contain a 2p5mpp" string in the file name), and 6.25 mpp (contain a "6p25mpp" string in the file name). Additionally, the three <em>e</em> > 10° images are included as unprojected .cub files; these files omit the "l2" (map projected, Level-2 data) string and any "l4" (mosaicked) string from the file name, but they instead include "trim" to indicate the image has been trimmed from its full extent to the area of interest.</p> <p>Crater data are formatted as .csv (comma-separated values) files and are one file per image per researcher. File names have the exact same name as the image file that was used to map crater data, with two differences: The initials of the author are appended, and the file extension is "csv" instead of "png". The files do not have headers, but they are formatted such that the first column is latitude (decimal degrees north), second column is longitude (decimal degrees east), and diameter (kilometers). Crater data are entirely in one .zip file.</p>
PWAS Hub: exploring gene-based associations of complex diseases with sex dependency - backing data
<p>The contents of the PWAS database is presented on <a title="The PWAS hub" href="https://pwas.huji.ac.il/?ver=2" target="_blank" rel="noopener">pwas.huji.ac.il</a>. The frontend and backend were build on top of a dynamical databse system. Please consult the direct API for PWAS if you wish to query the database directly: <a title="The PWAS API" href="https://pwas.huji.ac.il/API?ver=2" target="_blank" rel="noopener">pwas.huji.ac.il/API</a></p> <p>This is a PostgreSQL dump file that was created using <code>pg_dump</code>, the backup/restore procedure for PostgreSQL. To restore this into PostgreSQL do</p> <p>[a] create a database</p> <p><code>createdb DATABASE</code></p> <p>[b] on the terminal run</p> <p><code>pg_restore -vcC -h HOST -p PORT -d DATABASE < pwas_dump.20220628.psql</code></p> <p>The HOST and PORT are determined by your installation and DATABASE is given by you in step [a] abobe.</p> <p> </p> <p>To access the PWAS tables, look for table names that begin with <code>pwasAPI_</code></p> <p>A possible query to the database may look like this:</p> <p><code>SELECT * FROM "pwasAPI_genediseasestatpwas" WHERE uniprot_id = 'P09914' AND disease = 'C44';</code></p> <p>This query lists the data that associate uniprot id <strong>P09914</strong> (gene symbol IFIT1) and disease ICD-10 <strong>C44</strong> (Other malignant neoplasms of skin)</p>
Data for the publication: Recombinant silk protein condensates show widely different properties depending on the sample background
<p>This entry includes raw data for the publication "Recombinant silk protein condensates show widely different properties depending on the sample background". The original publication was published in: Journal of Materials Chemistry B, DOI: 10.1039/d4tb01422g</p> <p>The folder "Videos_Micropipette_Aspiration_Zenodo.zip" contains 9 TIF files, labeled Number1 - Number9. The numbering corresponds to the numbering of IMAC condensates studied with micropipette aspiration in the publication. Each TIF file is an image stack from a time series.</p> <p>The folders "Videos_IMAC_silk_with_BG_lysate_coalescence.zip", "Videos_HT_silk_coalescence.zip", and "Videos_IMAC_silk_coalescence.zip" all contain subfolders labeled with the purification method, the framerate of the videos and then consecutive numbering. Each of these folders contains the frames of the video as single TIF files.</p> <p>Please find more information in the read_me file uploaded.</p>
Data and software supporting the manuscript 'The population frequency of human mitochondrial DNA variants is highly dependent upon mutational bias'
<p>Next-generation sequencing can quickly reveal genetic variation potentially linked to heritable disease. As databases encompassing human variation continue to expand, rare variants have been of high interest, since the frequency of a variant is expected to be low if the genetic change leads to a loss of fitness or fecundity. However, the use of variant frequency when seeking genomic changes linked to disease remains very challenging. Here, we explore the role of selection in controlling human variant frequency using the HelixMT database, which encompasses hundreds of thousands of mitochondrial DNA (mtDNA) samples. We find that a substantial number of synonymous substitutions, which have no effect on protein sequence, were never encountered in this large study, while many other synonymous changes are found at very low frequencies. Further analyses of human and mammalian mtDNA datasets indicate that the population frequency of synonymous variants is predominantly determined by mutational biases rather than by strong selection acting upon nucleotide choice. Our work has important implications that extend to the interpretation of variant frequency for non-synonymous substitutions. </p> <p> </p>
Kinetochore life histories reveal an Aurora B dependent error correction mechanism in anaphase
<p>Dataset of kinetochore tracks in human RPE1 cells showing chromosome dynamics and segregation from prometaphase through to anaphase as described in detail in Sen, Harrison, Burroughs and McAinsh, 2021, https://doi.org/10.1101/2021.03.30.436326 Tracks correspond to 3D time-lapse movies of Ndc80-eGFP and were acquired in the 488nm channel using 1\% laser power, 50 ms exposure time/z-plane, 93 z-planes, 307 nm z-step, which results in 4.7 s/z-stack time frame. Cells are subject to nocodazole arrest-and-release or equivalent treatment with DMSO as indicated in the folder names, and some cells are subject to additional treatment with ZM to inhibit Aurora B (also indicated in folder names). Tracks were produced using kinetochore tracking software, KiT v2.3 (see Armond et al., 2016, Bioinformatics), available from https://github.com/cmcb-warwick/KiT/ </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.