Find research datasets worth reusing

Source data for the publication "Single-shot latched readout of a quantum dot qubit using barrier gate pulsing"

This repository contains data and source code for the publication "Single-shot latched readout of a quantum dot qubit using barrier gate pulsing."

Datasets belonging to the publication "Allelic variants confer Arabidopsis adaptation to small regional environmental differences".

Datasets belonging to the publication "Allelic variants confer Arabidopsis adaptation to small regional environmental differences". A short description of each file is found below. Samples in the Variant Call Format (VCF) files are named according to how they are stored in the National Center for Biotechnology Information (NCBI) BioSample database. Detailed descriptions of how each file was generated are found in the manuscript. Dartmap_Dutch_1001G_nuclear.vcf.gz 2,712,612 bi-allelic SNPs and 353,974 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the Arabidopsis thaliana Col-0 nuclear genome reference sequence. Dartmap_Dutch_1001G_mitochondrial.vcf.gz 231 bi-allelic SNPs and 23 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the A. thaliana Col-0 mitochondrial genome reference sequence. Dartmap_Dutch_1001G_chloroplast.vcf.gz 400 bi-allelic SNPs and 79 bi-allelic small indels called in the DartMap panel and the Dutch 1001G accessions (collectively referred to as DartMap + 1001G panel for brevity) relative to the A. thaliana Col-0 chloroplast genome reference sequence. Dartmap_CNVs.vcf.gz 29,155 copy number variants (CNVs) called in the DartMap panel relative to the A. thaliana Col-0 reference genome. Dartmap_Dutch_1001G_neighbouring_countries_nuclear.vcf.gz Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 nuclear genome reference sequence. Used for population structure analysis in the manuscript. Dartmap_Dutch_1001G_neighbouring_countries_mitochondrial.vcf.gz Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 mitochondrial genome reference sequence. Used for population structure analysis in the manuscript. Dartmap_Dutch_1001G_neighbouring_countries_chloroplast.vcf.gz Filtered VCF file containing variants of the DartMap + 1001G panel and that of neighbouring countries relative to the A. thaliana Col-0 chloroplast genome reference sequence. Used for population structure analysis in the manuscript. Dartmap_GWAS_GEA.vcf.gz Filtered VCF file containing all variants of the DartMap panel that were used for all genome-wide association (GWA) and genome-environment association (GEA) analyses. DartMap_phenotypical_data.xlsx All relevant phenotypical data of the DartMap panel.  Dartmap_sample_ids_NCBI_sample_names.csv Table showing which numerical ID of each DartMap sample corresponds to which NCBI BioSample ID.

Dataset for the publication: Ruthenium-Catalyzed "Open-Loop" Recycling of Polyethylene via Tandem Isomerization-Metathesis (ISOMET)

This dataset contains the processed data collected in the research study titled "Ruthenium-Catalyzed “Open-Loop” Recycling of Polyethylene via Tandem Isomerization-Metathesis (ISOMET)" published in Green Chemistry.   <h3>Description of included data:</h3> <ul> <li>pyrolysis_product_dist_fig2.csv <ul> <li>Units: wt%</li> <li>wt% for heavy and light with respect to the total liquid fraction</li> <li>total liquid fraction = 100 - gases wt% - solids wt%</li> </ul> </li> <li>chain_length_dist_fig3.csv <ul> <li>Column compound: number of C-atoms in chain</li> <li>Columns before and after in mg</li> </ul> </li> <li>full_conv_exp_run1.csv and full_conv_exp_run2.csv <ul> <li>Column time in minutes</li> <li>Columns for propylene and butene in mmol</li> </ul> </li> <li>20mLDoE_fig4b.csv <ul> <li>Column temperature in °C</li> <li>Column pressure in bar</li> </ul> </li> <li>50mLDoE_fig4c.csv <ul> <li>Column temperature in °C</li> <li>Column pressure in bar</li> </ul> </li> <li>rep_batch_full_fig4d.csv <ul> <li>Column time in h</li> <li>Column propylene in mmol</li> <li>Column exchange: if "yes" gas phase was exchanged after measurement</li> </ul> </li> <li>tga_tipelin_610B_figS1.csv <ul> <li>Column temp in °C</li> <li>Column time in min</li> <li>Column mass in wt%</li> </ul> </li> <li>plot.py <ul> <li>Recreates all the figures in the publication. Requires the packages matplotlib, numpy, pandas, rwthcolors and scipy to be installed in the environment.</li> </ul> </li> </ul>

An integrated analysis of the Passifloraceae virome using public-domain data

This dataset is the result of an An integrated analysis of the Passifloraceae virome using public-domain data.

Data for publication: Pixelated High-Q Metasurfaces for in Situ Biospectroscopy and Artificial Intelligence-Enabled Classification of Lipid Membrane Photoswitching Dynamics

Open the record for dataset details and reuse information.

Data table 5 from publication "Impaired interactions of ataxin-3 with protein complexes reveals their specific structure and functions in SCA3 Ki150 model" (doi.org/10.3389/fnmol.2023.1122308)

<div>An Excel table contains a list of proteins identified by MS from pull-down experiment using cerebellar cortex lysates with Dynabeads coated with anti-ataxin-3 1H9 mouse monoclonal antibodies. The false positive interactor proteins were excluded from this list by subtracting proteins found in "Supplementary_table 2_cortex isogenic mouse IgG control dynabeads.xlsx" </div> <div> </div>

Data table 4 from publication "Impaired interactions of ataxin-3 with protein complexes reveals their specific structure and functions in SCA3 Ki150 model" (doi.org/10.3389/fnmol.2023.1122308)

<div>An Excel table contains a list of proteins identified by MS from a pull-down experiment using cerebellum lysates with Dynabeads coated with anti-ataxin-3 1H9 mouse monoclonal antibodies. The false positive interactor proteins were excluded from this list by subtracting proteins found in "Supplementary_table 3_cerebellum isogenic mouse IgG control dynabeads.xlsx </div>

Data table 2 from publication "Impaired interactions of ataxin-3 with protein complexes reveals their specific structure and functions in SCA3 Ki150 model" (doi.org/10.3389/fnmol.2023.1122308)

An excel table containing a list of proteins identified by MS from samples after a pull-down experiment using cerebral cortex lysates with Dyna beads coated with control isogenic mouse IgG. The proteins from the list were considered false positive interactors of ataxin-3 in the cortex.

Data table 1 from publication "Impaired interactions of ataxin-3 with protein complexes reveals their specific structure and functions in SCA3 Ki150 model" (doi.org/10.3389/fnmol.2023.1122308)

An excel table contains LFQ intensity and other raw MS data for proteins identified in fractions 3,4,5 (i), 11, 12, 13, (ii) 18, 19, and 20 (iii) from ki150 and ki21 model brains. These fractions showed enrichment in ATXN3 protein. The fractions are visualized in Figure 4 (<a href="http://doi.org/10.3389/fnmol.2023.1122308" target="_blank" rel="noopener">doi.org/10.3389/fnmol.2023.1122308</a>)

Demo-Dataset for publication "FAIR workflows in Earth system modelling: a use case with semantic data management"

This demodataset is intended to be used to test the workflow described in the publication by Lennartz & Schlemmer  "FAIR workflows in Earth System modelling: a use case with semantic data management". It contains example model output for an arbitrary biogeochemical model tracer (here: dissolved organic carbon, DOC) from an ocean model as a 4-dimensional dataset (latitude, longitude, depth, time), the corresponding grid point locations as well as a textfile specifying parameter inputs for the model. The file structure is adapted for seamless integration into the workflow described in Lennartz & Schlemmer, which builds on the open source semantic research data management system LinkAhead. The dataset contains the following structure: The folder DataAnalysis stores data required for data analysis, such as the grid point locations in the file TMM_grid_v2018a.mat. The folder SimulationData stores model output in the folder 2022_TMM, containing the parameter input file nl_in.txt and the model output TR_monthly.mat. Related instructions can be accessed here: https://gitlab.com/salexan/fairworkflows-demodataset .

Assessment of Patient Safety Culture and Associated Factors among Healthcare Professionals in Public Hospitals of Bahir Dar City, Northwest Ethiopia: A Mixed-Methods Study

This data set contains HSOPSC  on the Assessment of Patient Safety Culture and Associated Factors among Healthcare Professionals in Public Hospitals of Bahir Dar City, Northwest Ethiopia: A Mixed-Methods Study

Assessment of Patient Safety Culture and Associated Factors among Healthcare Professionals in Public Hospitals of Bahir Dar City, Northwest Ethiopia: A Mixed-Methods Study

This dataset contains raw data on "regression analyses" on  the assessment of patient safety culture among healthcare professionals in public hospitals of Bahir Dar City, Northwest Ethiopia."

Assessment of Patient Safety Culture and Associated Factors among Healthcare Professionals in Public Hospitals of Bahir Dar City, Northwest Ethiopia: A Mixed-Methods Study

This dataset contains raw data  of " Likert Scale Descriptive Analysis"on the assessment of patient safety culture among healthcare professionals in public hospitals of Bahir Dar City, Northwest Ethiopia.

Earth BioGenome Project: Authors and author contributions for publication "The Earth BioGenome Project Phase II: Illuminating the Eukaryotic Tree of Life"

The zipped file cntains three tab-separated datasets (worksheets). These worksheets list The contributing authors for the manuscript "The Earth BioGenome Project Phase II: Illuminating the Eukaryotic Tree of Life" and the roles of these authors in the manuscript. The funding sources for these authors A list of the authors contributing to the "EBP Community of Scientists" collective authorship for the same manuscript.

Data_&_Code_in_Publications

This repository contains data and/codes in my publications.

Data for publication "Selected Simple Natural Antimicrobial Terpenoids as Additives to Control Biodegradation of Polyhydroxy Butyrate"

Abstract <div>In this experimental research, different types of essential oils (EOs) were blended with polyhydroxybutyrate (PHB) to study the influence of these additives on PHB degradation. The blends were developed by incorporating three terpenoids at two concentrations (1 and 3%). The mineralization rate obtained from CO2 released from each sample was the factor that defined biodegradation. Furthermore, scanning electron microscope (SEM), differential scanning calorimetry (DSC), and dynamic mechanical analysis (DMA) were used in this research. The biodegradation percentages of PHB blended with 3% of eucalyptol, limonene, and thymol after 226 days were reached 66.4%, 73.3%, and 76.9%, respectively, while the rate for pure PHB was 100% after 198 days, and SEM images proved these results. Mechanical analysis of the samples showed that eucalyptol had the highest resistance level, even before the burial test. The other additives showed excellent mechanical properties although they had less mechanical strength than pure PHB after extrusion. The samples’ mechanical properties improved due to their crystallinity and decreased glass transition temperature (Tg). DSC results showed that blending terpenoids caused a reduction in Tg, which is evident in the DMA results, and a negligible reduction in melting point (Tm).</div> <div> </div> Data for publication contains: Scanning Electron Microscope (SEM), Differential Scanning Calorimetry (DSC), and Dynamic Mechanical Analysis (DMA) figures and images for samples Full publication can be found here: https://zenodo.org/records/13785631

Experimental dataset for the publication "Characterisation of Microstructure and Special Grain Boundaries in LPBF AlSi10Mg Alloy Subjected to the KoBo Extrusion Process"

Dataset includes: EBSD data: KOBO.ang - KOBO-processed sample LPBF_condition.ang - As-built sample TKD data: TKD_KOBO.ang - KOBO-processed sample HRTEM images: Fig. 12(b).dm3 - KOBO-processed sample

Forest Regrowth Carbon Gains Data for publication: The key role of forest disturbance in reconciling estimates of the northern carbon sink

'Space for time' regrowth carbon gains based on forest age map (Besnard et al. 2021; https://doi.org/10.5194/essd-13-4881-2021) and ESA-CCI Biomass v4 (Santoro et al. 2023; <a href="https://dx.doi.org/10.5285/af60720c1e404a9e9d2c145d2b2ead4e">https://dx.doi.org/10.5285/af60720c1e404a9e9d2c145d2b2ead4e</a>). Gridded cumultiave carbon gains 2001-2021 at 1km spatial resolution are provided for the four study regions. Regional total carbon gains from forest regrowth are provided for each year 2001-2021. See O'Sullivan et al. 2024 () for full details.

Appendix Figures B.1–B.7 from the article 'Core Prominence as a Signature of Restarted Jet Activity in the LOFAR Radio-Galaxy Population' (Accepted for publication in the journal Astronomy & Astrophysics on August 23, 2024)

Figure captions:   Figs. B.1–B.5. Images of 69 candidate restarted galaxies selected based on high radio $\mathrm{CP_{1400}}$ combined with low SB of extended emission, a steep spectrum of the core, and USS extended emission coupled with a bright core and summarised in Tables A.1 and A.2. Radio contours from VLA FIRST maps (white, $5^{\prime\prime}$), LOFAR high-resolution maps (black, $6^{\prime\prime}$), and NVSS maps (purple, $45^{\prime\prime}$) are overlaid on the LOFAR low-resolution resolution maps (orange, $20^{\prime\prime}$). The contouring of all the maps is made at $\,\sigma_\mathrm{local}\times(-3,3,5,10,20,30,40,50,100,150,200)$ levels, with $\sigma_\mathrm{local}$ representing the local RMS noise of the corresponding maps. The host galaxy position is marked with a yellow cross.   Figs. B.6–B.7. Images of sources excluded from the sample of restarted candidates following the criteria discussed in Sect. 3.1, Sect. 3.2 and Sect. 3.3 and summarised in Tables A.3 and A.4. Radio contours from VLA FIRST maps (white, $5^{\prime\prime}$), LOFAR high-resolution maps (black, $6^{\prime\prime}$), and NVSS maps (purple, $45^{\prime\prime}$) are overlaid on the LOFAR low-resolution resolution maps (orange, $20^{\prime\prime}$). The contouring of all the maps is made at $\,\sigma_\mathrm{local}\times(-3,3,5,10,20,30,40,50,100,150,200)$ levels, with $\sigma_\mathrm{local}$ representing the local RMS noise of the corresponding maps. The host galaxy position is marked with a yellow cross.

Data for the paper "Improving Efficiency Through the Publication of Expected Distances for Standard Terminal Arrival Routes "

Data in support of the paper "Improving Efficiency Through the Publication of Expected Distances for Standard Terminal Arrival Routes". The data is organised in subfolders containing the data for each of the three analysed airports (LSGG, EDDM, LIRF). Each folder includes a landing_full.parquet traffic file that contains all analyzed trajectories for the respective airport, along with random subsamples of sizes 10,000, 5,000, and 2,500. Additionally, each folder also contains samples of 1000 trajectories following each of the four specific STAR procedure that were analysed per airport: <ul> <li>LSGG: AKITO 3R, BELUS 3N, KINES 2N, LUSAR 2N</li> <li>EDDM: BETOS 1A, LANDU 1B, NAPSA 1B, ROKIL 1A</li> <li>LIRF: ELKAP 2A, LAT 2C, RITEB 2A, VALMA 2C</li> </ul> Finally, each folder also contains a landing_df.parquet file that summarises the following key information about each of the trajectories contained in the landing_full.parquet file: <table> <tbody> <tr> <td>ID</td> <td>A unique identifier linking the row to the corresponding trajectory data</td> </tr> <tr> <td>Typecode</td> <td>The ICAO typecode of the aircraft</td> </tr> <tr> <td>Start</td> <td>Timestamp when the aircraft passes the first waypoint of the STAR</td> </tr> <tr> <td>Stop</td> <td>Timestamp when the aircraft crosses the runway threshold</td> </tr> <tr> <td>Runway</td> <td>Designator of the landing runway</td> </tr> <tr> <td>STAR</td> <td>Name of the STAR procedure used by the aircraft</td> </tr> <tr> <td>Distance</td> <td>Total distance traveled by the aircraft from the initial waypoint of the STAR to the runway threshold</td> </tr> </tbody> </table>