Analysis of publications of the Swedish Metabolomics Centre for Open Access licenses, data availability statements and access to data

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/SwedishOpens in a new tab 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 article 2. Authors 3. Journal 4. Year 5. (Date) Published 6. (Date) E-published 7. Volume 8. Issue 9. Pages 10. DOI 11. PMID 12. Labels 13. Qualifiers 14. IUID 15. URL 16. DOI URL of research article 17. PubMed URL of research article File 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.v1Opens in a new tab AbbreviationsCC BY 4.0: Creative Commons Attribution 4.0 International Public License CC BY-NC 4.0: Creative Commons Attribution-NonCommercial 4.0 International Public License CC BY-NC 3.0: Creative Commons Attribution-NonCommercial 3.0 International Public License CC BY-NC-ND 4.0: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International Public License DOI: Digital Object Identifier EBI: European Bioinformatics Institute EBI-ArrayExpress: The ArrayExpress collection of functional genomics data at the EBI EBI-ENA: European Nucleotide Archive at the EBI EBI-Pride: Proteomics Identification Database at the EBI e!DAL: electronic Data Archive Library at the Leibniz Institute for Plant Genetics and Crop Plant Research IUID: Item Unique identification LUDC: Lund University Diabetes Centre LUDC repository: data repository at the Lund University Diabetes Centre NCBI: National Center for Biotechnology Information NCBI-GEO: The Gene Expression Omnibus database repository at the NCBI NCBI-SRA: The Sequence Read Archive at the NCBI PMID: Pubmed Identifier URL: Uniform Resource Locator MD5 Checksums of the filesManifest.txt (2 KB): 89f32a728fb74ebecef0aef4633130b0 README.txt (6 KB): 34ea4ad9cb9bdea54755fa87f2d0b913 Analysis_SMC_publications_2016_2024_Open_Access_publication_and_access_to_data_status_2025_06_24.csv (46 KB): 9719df26381901bc6aabfd34fdbfab81 Analysis_SMC_publications_2016_2024_Open_Access_publication_and_access_to_data_status_2025_06_24.xlsx (49 KB): 1ec95dc29262645240e7d8714967bcfc Table_1_Overview_SMC_publications_2016_2024_status_2025_06_11.csv (391 Bytes): 1fd723dc6f52f18251d41c0d343a4f0f Table_1_Overview_SMC_publications_2016_2024_status_2025_06_11.xlsx (9 KB): 38622a9681c6f1057a6e1a4be56b0285 Figure_1_SMC_publications_2016_2024_open_access_license_and_data_availability_status_2025_06_11.csv (468 Bytes): 9f9156f8d52603ccdec968f626bc002a Figure_1_SMC_publications_2016_2024_open_access_license_and_data_availability_status_2025_06_11.jpg (119 KB): dc9a4d7de4c789e8aea46ce66e007301 Figure_1_SMC_publications_2016_2024_open_access_license_and_data_availability_status_2025_06_11.xlsx (15 KB): 6527d1ebd0069ef3757bd1b049f0fc74 Figure_2_SMC_publications_2016_2024_metabolomics_data_and_other_data_to_repositories_status_2024_06_12.csv (300 Bytes): 5abc4a0fcf776f8dc4745f41deddacbc Figure_2_SMC_publications_2016_2024_metabolomics_data_and_other_data_to_repositories_status_2024_06_12.jpg (126 KB): e03e5bf4ba2d942c3b022aebb0a59033 Figure_2_SMC_publications_2016_2024_metabolomics_data_and_other_data_to_repositories_status_2024_06_12.xlsx (15 KB): a80f977c051d4798db221b07733c694b Figure_3_SMC_publications_2016_2024_overview_supplementary_data_status_2025_06_11.csv (670 Bytes): a694a3defa98aa52fcdec8ff9e9e3316 Figure_3_SMC_publications_2016_2024_overview_supplementary_data_status_2025_06_11.jpg(153 KB): 3928bdc1f046ca9b6f66bdbcdf936ca8 Figure_3_SMC_publications_2016_2024_overview_supplementary_data_status_2025_06_11.xlsx (15 KB): 46dfda56b116b571b4bf8e3674b44512 Figure_4_SMC_publications_2016_2024_submission_of_data_to_repositories_status_2025_06_12.csv (498 Bytes): 8963a412cc9e458ced2e80883bb93e1a Figure_4_SMC_publications_2016_2024_submission_of_data_to_repositories_status_2025_06_12.jpg (137 KB): c9ba447225e99431f24732128a754b7e Figure_4_SMC_publications_2016_2024_submission_of_data_to_repositories_status_2025_06_12.xlsx (16 KB): 1e2813d3ccb0ee14991b276947c21b8a Materials_and_methods_SMC_publications_2016_2024.docx (19 KB): 71776ffc1e530e1b40255763403b2f40 Materials_and_methods_SMC_publications_2016_2024.txt (4 KB): 26c4b91b958b9e33d93d13dc52b25da9 Materials_and_methods_SMC_publications_2026_2024.pdf (172 KB): eee564f452ef4f3cf57bb81a6874fcd4 SMC_publications_2016_2024_status_2025_05_05.csv (143 KB): 5e61d09244ca90b1e5b057a7afdfe5e7 SMC_publications_2016_2024_status_2025_05_05.xlsx (106 KB): 6977fbcac21ff5a12763e40de90c0a91