DOI: 10.17044/scilifelab.29392007
title: Analysis of publications of the Swedish Metabolomics Centre for Open Access licenses, data availability statements and access to data

description: Content and data sourceThis dataset contains the results of a manual analysis of Open Science markers in the publications of the Swedish Metabolomics Centre (SMC) between 2016 and 2024. It contains similar variables as the data of the "Analysis of CBCS publications for Open Access, data availability statements and persistent identifiers for supplementary data" (Kieselbach, 2023).The sample of these publications was fetched from SciLifeLab on 5 May 2025 at the URL: https://publications.scilifelab.se/label/Swedish Metabolomics Centre (SMC)It contains 285 articles that are the source data for the work to create this dataset. Every publication was manually visited at its DOI URL and checked for 23 variables.Questions studiedSome of the questions that were addressed in the collection of the data are:1. Does the article have an open license and what kind of license does it have?2. Does the article contain research data that may have restricted access such as personal data and health data?3. Does the article contain a data availability statement?4. Does the article contain supplementary material that the authors added to it?5. Does the supplementary material contain research data?6. Does the supplementary material contain metabolomics data such as, for instance, summaries and visualizations?7. Did the authors submit metabolomics data to MetaboLights at the EBI or to other repsoitories?8. Did the authors submit other data to other repositories?9. Is data available on request from the authors?Visualization of dataThe data was compiled and visualized using Microsoft Excel 365. The visualization includes one table that gives a general overview of the dataset, and four figures that show some results of the analysis.Figure 1. Percentage of publications between 2016 and 2024 with an Open Access License and with a data availability statement.Figure 2. Submissions to repositories between 2016 and 2024.Figure 3. Percentage of publications that contained supplementary material and if this supplementary material contained research data and metabolomics data.Figure 4. Repositories used by the authors between 2016 and 2024.List of variables1. Year of Publication (answer: year)2. Date of Publication (answer: date)3. DOI (answer: DOI)4. DOI URL (answer: DOI URL)5. Research article (answer: Yes or No)6. Access to article without paywall (answer: Yes or No)7. License for research article (answer: Name of the license or No)8. Data with restricted access (answer: Yes or No)9. Data availability statement in article (answer: Yes or No)10. Supplementary material added to article (answer: Yes or No)11. Access to supplementary material without paywall (answer: Yes or No)12. Supplementary material contains research data (answer: Yes or No)13. Supplementary data contains metabolomics data (answer: Yes or No)14. Persistent identifier for supplementary data (answer: Yes or No)15. Source data added to the article (answer: Yes or No)16. Source data contain metabolomics data (answer: Yes or No)17. Authors submitted metabolomics data to MetaboLights (answer: Yes or No)18. Authors submitted metabolomics data to another repository (answer: name of the repository or No)19. Authors submitted other data to a repository (answer: name of the repository or No)20. Authors submitted other data to a second repository (answer: name of the repository or No)21. Authors submitted other data to a third repository (answer: name of the repository or No)22. Authors submitted code to a repository (answer: name of the repository or No)23. Data available on request from the authors (answer: Yes or No)Variables that are available in the source data1. Title of article2. Authors3. Journal4. Year5. (Date) Published6. (Date) E-published7. Volume8. Issue9. Pages10. DOI11. PMID12. Labels13. Qualifiers14. IUID15. URL16. DOI URL of research article17. PubMed URL of research articleFile formats and softwareThe file formats used in this dataset are:.csv (Text file).jpg (JPEG image file).pdf/A (Portable Document Format for archiving).txt (Text file).xlsx (Microsoft Excel 365 file)All files can be opened with Microsoft Office 365.ReferenceKieselbach, Theresa (2023). Analysis of CBCS publications for Open Access, data availability statements and persistent identifiers for supplementary data. Umeå University. Dataset. https://doi.org/10.17044/scilifelab.23641749.v1AbbreviationsCC BY 4.0: Creative Commons Attribution 4.0 International Public LicenseCC BY-NC 4.0: Creative Commons Attribution-NonCommercial 4.0 International Public LicenseCC BY-NC 3.0: Creative Commons Attribution-NonCommercial 3.0 International Public LicenseCC BY-NC-ND 4.0: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International Public LicenseDOI: Digital Object IdentifierEBI: European Bioinformatics InstituteEBI-ArrayExpress: The ArrayExpress collection of functional genomics data at the EBIEBI-ENA: European Nucleotide Archive at the EBIEBI-Pride: Proteomics Identification Database at the EBIe!DAL: electronic Data Archive Library at the Leibniz Institute for Plant Genetics and Crop Plant ResearchIUID: Item Unique identificationLUDC: Lund University Diabetes CentreLUDC repository: data repository at the Lund University Diabetes CentreNCBI: National Center for Biotechnology InformationNCBI-GEO: The Gene Expression Omnibus database repository at the NCBINCBI-SRA: The Sequence Read Archive at the NCBIPMID: Pubmed IdentifierURL: Uniform Resource LocatorMD5 Checksums of the filesManifest.txt (2 KB): 89f32a728fb74ebecef0aef4633130b0README.txt (6 KB): 34ea4ad9cb9bdea54755fa87f2d0b913Analysis_SMC_publications_2016_2024_Open_Access_publication_and_access_to_data_status_2025_06_24.csv (46 KB): 9719df26381901bc6aabfd34fdbfab81Analysis_SMC_publications_2016_2024_Open_Access_publication_and_access_to_data_status_2025_06_24.xlsx (49 KB): 1ec95dc29262645240e7d8714967bcfcTable_1_Overview_SMC_publications_2016_2024_status_2025_06_11.csv (391 Bytes): 1fd723dc6f52f18251d41c0d343a4f0fTable_1_Overview_SMC_publications_2016_2024_status_2025_06_11.xlsx (9 KB): 38622a9681c6f1057a6e1a4be56b0285Figure_1_SMC_publications_2016_2024_open_access_license_and_data_availability_status_2025_06_11.csv (468 Bytes): 9f9156f8d52603ccdec968f626bc002aFigure_1_SMC_publications_2016_2024_open_access_license_and_data_availability_status_2025_06_11.jpg (119 KB): dc9a4d7de4c789e8aea46ce66e007301Figure_1_SMC_publications_2016_2024_open_access_license_and_data_availability_status_2025_06_11.xlsx (15 KB): 6527d1ebd0069ef3757bd1b049f0fc74Figure_2_SMC_publications_2016_2024_metabolomics_data_and_other_data_to_repositories_status_2024_06_12.csv (300 Bytes): 5abc4a0fcf776f8dc4745f41deddacbcFigure_2_SMC_publications_2016_2024_metabolomics_data_and_other_data_to_repositories_status_2024_06_12.jpg (126 KB): e03e5bf4ba2d942c3b022aebb0a59033Figure_2_SMC_publications_2016_2024_metabolomics_data_and_other_data_to_repositories_status_2024_06_12.xlsx (15 KB): a80f977c051d4798db221b07733c694bFigure_3_SMC_publications_2016_2024_overview_supplementary_data_status_2025_06_11.csv (670 Bytes): a694a3defa98aa52fcdec8ff9e9e3316Figure_3_SMC_publications_2016_2024_overview_supplementary_data_status_2025_06_11.jpg(153 KB): 3928bdc1f046ca9b6f66bdbcdf936ca8Figure_3_SMC_publications_2016_2024_overview_supplementary_data_status_2025_06_11.xlsx (15 KB): 46dfda56b116b571b4bf8e3674b44512Figure_4_SMC_publications_2016_2024_submission_of_data_to_repositories_status_2025_06_12.csv (498 Bytes): 8963a412cc9e458ced2e80883bb93e1aFigure_4_SMC_publications_2016_2024_submission_of_data_to_repositories_status_2025_06_12.jpg (137 KB): c9ba447225e99431f24732128a754b7eFigure_4_SMC_publications_2016_2024_submission_of_data_to_repositories_status_2025_06_12.xlsx (16 KB): 1e2813d3ccb0ee14991b276947c21b8aMaterials_and_methods_SMC_publications_2016_2024.docx (19 KB): 71776ffc1e530e1b40255763403b2f40Materials_and_methods_SMC_publications_2016_2024.txt (4 KB): 26c4b91b958b9e33d93d13dc52b25da9Materials_and_methods_SMC_publications_2026_2024.pdf (172 KB): eee564f452ef4f3cf57bb81a6874fcd4SMC_publications_2016_2024_status_2025_05_05.csv (143 KB): 5e61d09244ca90b1e5b057a7afdfe5e7SMC_publications_2016_2024_status_2025_05_05.xlsx (106 KB): 6977fbcac21ff5a12763e40de90c0a91