Have a personal or library account? Click to login
Umbrella Data Management Plans to Integrate FAIR Data: Lessons From the ISIDORe and BY-COVID Consortia for Pandemic Preparedness Cover

Umbrella Data Management Plans to Integrate FAIR Data: Lessons From the ISIDORe and BY-COVID Consortia for Pandemic Preparedness

Data Science Journal
Volume 22 (2023): Issue 1
By: Romain David,  Audrey S. Richard,  Claire Connellan,  Katharina B. Lauer,  Maria Luisa Chiusano,  Carole Goble,  Martin Houde,  Isabel Kemmer,  Antje Keppler,  Philippe Lieutaud,  Christian Ohmann,  Maria Panagiotopoulou,  Sara Raza Khan,  Arina Rybina,  Stian Soiland-Reyes,  Charlotte Wit,  Rudolf Wittner,  Rafael Andrade Buono,  Sarah Arnaud Marsh,  Pauline Audergon,  Dylan Bonfils,  Jose-Maria Carazo,  Remi Charrel,  Frederik Coppens,  Wolfgang Fecke,  Claudia Filippone,  Eva Garcia Alvarez,  Sheraz Gul,  Henning Hermjakob,  Katja Herzog,  Petr Holub,  Lukasz Kozera,  Allyson L. Lister,  José López-Coronado,  Bénédicte Madon,  Kurt Majcen,  William Martin,  Wolfgang Müller,  Elli Papadopoulou,  Christine M.A. Prat,  Paolo Romano,  Susanna-Assunta Sansone,  Gary Saunders,  Niklas Blomberg and  Jonathan Ewbank  
Open Access
|Sep 2023

References

  1. Bishop, B, Gunderman, H, Davis, R, et al. 2020. Data curation profiling to assess data management training needs and practices to inform a toolkit. Data Science Journal, 19(1): 4. DOI: 10.5334/dsj-2020-004
    Open DOISearch in Google ScholarBack to article
  2. Blomberg, N, Sarntivijai, S and Mayrhofer, MTh. 2020. EOSC-Life data management plan. Zenodo. DOI: 10.5281/zenodo.4010442
    Open DOISearch in Google ScholarBack to article
  3. Burnette, MH, Williams, SC and Imker, HJ. 2016. From plan to action: successful data management plan implementation in a multidisciplinary project. Journal of eScience Librarianship, 5(1): 6. DOI: 10.7191/jeslib.2016.1101
    Open DOISearch in Google ScholarBack to article
  4. Canham, S, Felder, G, Ohmann, C and Panagiotopoulou, M. 2022. Identification of COVID-19 clinical studies intending to share individual participant data for secondary use: Protocol for a pilot study. Zenodo. DOI: 10.5281/zenodo.7064624
    Open DOISearch in Google ScholarBack to article
  5. Carroll, SR, Garba, I, Figueroa-Rodríguez, OL, et al. 2020. The CARE principles for indigenous data governance. Data Science Journal, 19: 43. DOI: 10.5334/dsj-2020-043
    Open DOISearch in Google ScholarBack to article
  6. David, R, Mabile, L, Specht, A, et al., RDA – SHAring Reward and Credit (SHARC) Interest Group R.D.A. 2020. FAIRness literacy: The Achilles’ heel of applying FAIR principles. Data Science Journal, 19(1): 32. DOI: 10.5334/dsj-2020-032
    Open DOISearch in Google ScholarBack to article
  7. David, R, Ohmann, C, Boiten, JW, et al. 2022. An iterative and interdisciplinary categorisation process towards FAIRer digital resources for sensitive life-sciences’ data. Sci Rep, 12: 20989. DOI: 10.1038/s41598-022-25278-z
    Open DOISearch in Google ScholarBack to article
  8. Davidson, J, Grootveld, M, Verburg, M, et al. 2022. FAIR-enabling Data Policy Checklist. Zenodo. DOI: 10.5281/zenodo.6225775
    Open DOISearch in Google ScholarBack to article
  9. Eguinoa, I, Suchánek, M, Knaisl, V, et al. 2022. BioHackEU22 Report: Enhancing research data management in Galaxy and Data Stewardship Wizard by utilising RO-Crates. BiorXiv (in prep). DOI: 10.37044/osf.io/24jst
    Open DOISearch in Google ScholarBack to article
  10. Frey, J and Hellmann, S. 2021. FAIR linked data – towards a linked data backbone for users and machines. In Companion Proceedings of the Web Conference 431–435 (Association for Computing Machinery, 2021). DOI: 10.1145/3442442.3451364
    Open DOISearch in Google ScholarBack to article
  11. García Álvarez, E, Mayrhofer, M and Holub, P. 2021. BY-COVID – D8.2 – Data Management Plan. Zenodo. DOI: 10.5281/zenodo.6884816
    Open DOISearch in Google ScholarBack to article
  12. Giraldo, O, Alves, R, Bampalikis, D, et al. 2022. A FAIRification roadmap for ELIXIR software management plans. 1st International Conference on FAIR Digital Objects (FDO 2022). Research Ideas and Outcomes, 8: e94608. DOI: 10.3897/rio.8.e94608
    Open DOISearch in Google ScholarBack to article
  13. Goble, C, Soiland-Reyes, S, Bacall, F, et al. 2021. Implementing FAIR digital objects in the EOSC-Life workflow collaboratory. Zenodo. DOI: 10.5281/zenodo.4605654
    Open DOISearch in Google ScholarBack to article
  14. Goble, C, Bacall, F, Soiland-Reyes, S, et al. 2022. WorkflowHub – a FAIR registry for workflows. F1000Research, 11. DOI: 10.7490/f1000research.1118984.1
    Open DOISearch in Google ScholarBack to article
  15. Haque, AKMB, Arifuzzaman, BM, Siddik, SAN, et al. 2022. Semantic web in healthcare: A systematic literature review of application, research gap, and future research avenues. Int J Clin Pract. 2022: 6807484. DOI: 10.1155/2022/6807484
    Open DOISearch in Google ScholarBack to article
  16. Hermjakob, H, Kleemola, M, Moilanen, K, et al. 2022. BY-COVID – D3.1 – Metadata standards. Documentation on metadata standards for inclusion of resources in data portal. Zenodo. DOI: https://www.doi.org:10.5281/zenodo.6885016
    Search in Google ScholarBack to article
  17. Holub, P, Kohlmayer, F, Prasser, F, et al. 2018. Enhancing reuse of data and biological material in medical research: From FAIR to FAIR-Health. Biopreserv Biobank, 16: 97–105. DOI: 10.1089/bio.2017.0110
    Open DOISearch in Google ScholarBack to article
  18. Hrynaszkiewicz, I, Simons, N, Hussain, A, et al. 2020. Developing a research data policy framework for all journals and publishers. Data Science Journal, 19: 5. DOI: 10.5334/dsj-2020-005
    Open DOISearch in Google ScholarBack to article
  19. Hutson, M. 2022. Taking the pain out of data sharing. Nature, 610: 220–221. DOI: 10.1038/d41586-022-03133-5
    Open DOISearch in Google ScholarBack to article
  20. Jacobs, JA and Humphrey, C. 2004. Preserving research data. Commun. ACM, 47(9): 27–29. DOI: 10.1145/1015864.1015881
    Open DOISearch in Google ScholarBack to article
  21. Kesisoglou, I, Cosgrove, S, Derycke, P, et al. 2022. Glossary of commonly used terms in the field of health data research – developed by the EU project HealthyCloud. Zenodo. DOI: 10.5281/zenodo.6787119
    Open DOISearch in Google ScholarBack to article
  22. Lin, D, Crabtree, J, Dillo, I, et al. 2020. The TRUST Principles for digital repositories. Sci Data, 7: 144. DOI: 10.1038/s41597-020-0486-7
    Open DOISearch in Google ScholarBack to article
  23. Michener, WK. 2015. Ten simple rules for creating a good data management plan. PLoS Comput Biol, 11: e1004525. DOI: 10.1371/journal.pcbi.1004525
    Open DOISearch in Google ScholarBack to article
  24. Miksa, T, Jaoua M and Arfaoui, G. 2020. Research object crates and machine-actionable data management plans. First Workshop on Data and Research Objects Management for Linked Open Science(DaMaLOS) at The 19th International Semantic Web Conference (ISWC 2020). DOI: 10.4126/frl01-006423291
    Open DOISearch in Google ScholarBack to article
  25. Miksa, T, Walk, P and Neish, P. 2020. RDA DMP common standard for machine-actionable data management plans. RDA recommendation. DOI: 10.15497/rda00039
    Open DOISearch in Google ScholarBack to article
  26. Mons, B. 2020. Invest 5% of research funds in ensuring data are reusable. Nature, 578: 491–491. DOI: 10.1038/d41586-020-00505-7
    Open DOISearch in Google ScholarBack to article
  27. Ohmann, C, Banzi, R, Canham, S, et al. 2017. Sharing and reuse of individual participant data from clinical trials: principles and recommendations. BMJ Open, 7: e018647. DOI: 10.1136/bmjopen-2017-018647
    Open DOISearch in Google ScholarBack to article
  28. Pergl, R, Hooft, R, Suchánek, M, et al. 2019. Data Stewardship Wizard: A tool bringing together researchers, data stewards, and data experts around data management planning. Data Science Journal, 18(1): 59. DOI: 10.5334/dsj-2019-059
    Open DOISearch in Google ScholarBack to article
  29. Papadopoulou, E, Bardi, A and Kakaletris, G. 2020. Data management plans and linked open data: Exploiting machine actionable data management plans through open science graphs. First Workshop on Data and Research Objects Management for Linked Open Science (DaMaLOS) at The 19th International Semantic Web Conference (ISWC 2020). DOI: https://repository.publisso.de/resource/frl:6423283
    Search in Google ScholarBack to article
  30. Richard, A, Stepanyan, D and Ewbank, J. 2022. Pandemic preparedness – Europe launches research consortium. Nature, 603(7900): 228. PMID: 35260850. DOI: 10.1038/d41586-022-00669-4
    Open DOISearch in Google ScholarBack to article
  31. Rocca-Serra, P, Gu, W, Ioannidis, V, et al. 2023. The FAIR Cookbook – The essential resource for and by FAIR doers. Sci Data, 10: 292. DOI: 10.1038/s41597-023-02166-3
    Open DOISearch in Google ScholarBack to article
  32. Sansone, S-A, McQuilton, P, Rocca-Serra, P, et al. 2019. FAIRsharing as a community approach to standards, repositories and policies. Nat Biotechnol, 37: 358–367. DOI: 10.1038/s41587-019-0080-8
    Open DOISearch in Google ScholarBack to article
  33. Smale, N, Unsworth, K, Denyer, G, et al. 2020. A review of the history, advocacy and efficacy of data management plans. International Journal of Digital Curation, 15(1): 1–29. DOI: 10.2218/ijdc.v15i1.525
    Open DOISearch in Google ScholarBack to article
  34. Stall, S, Specht, A, Corrêa, PLP, et al. 2020. PARSEC data and digital output management plan and workbook. Zenodo. DOI: 10.5281/zenodo.3891426
    Open DOISearch in Google ScholarBack to article
  35. Soiland-Reyes, S, Sefton, P, Crosas, M, et al. 2022a. Packaging research artefacts with RO-Crate. Data Science, 5(2). DOI: 10.3233/ds-210053
    Open DOISearch in Google ScholarBack to article
  36. Soiland-Reyes, S, Sefton, P, Jael Castro, L, et al. 2022b. Creating lightweight FAIR digital objects with RO-Crate. 1st International Conference on FAIR Digital Objects (FDO 2022). Research Ideas and Outcomes 8: e93937. DOI: 10.3897/rio.8.e93937
    Open DOISearch in Google ScholarBack to article
  37. Vines, TH, Albert, AYK, Andrew, RL, et al. 2014. The availability of research data declines rapidly with article age. Current Biology, 24: 94–97. DOI: 10.1016/j.cub.2013.11.014
    Open DOISearch in Google ScholarBack to article
  38. Waagmeester, A, Stupp, G, Burgstaller-Muehlbacher, S, et al. 2020. Wikidata as a knowledge graph for the life sciences. eLife, Mar 17; 9: e52614. DOI: 10.7554/eLife.52614
    Open DOISearch in Google ScholarBack to article
  39. Wilkinson, MD, Dumontier, M, Aalbersberg, IjJ, et al. 2016. The FAIR Guiding Principles for scientific data management and stewardship. Scientific Data, 3: 160018. DOI: 10.1038/sdata.2016.18
    Open DOISearch in Google ScholarBack to article
  40. Wittner, R, Holub, P, Müller, H, et al. 2021. ISO 23494: Biotechnology – Provenance Information Model for Biological Specimen And Data’ In: Glavic, B., Braganholo, V., Koop, D. (eds) Provenance and Annotation of Data and Processes. IPAW IPAW 2020 2021. Lecture Notes in Computer Science, vol 12839. Springer International Publishing, Cham, 222–225. DOI: 10.1007/978-3-030-80960-7_16
    Open DOISearch in Google ScholarBack to article
  41. Wittner, R, Mascia, C, Gallo, M, et al. 2022. Lightweight distributed provenance model for complex real-world environments. Sci Data, 9: 503. DOI: 10.1038/s41597-022-01537-6
    Open DOISearch in Google ScholarBack to article
DOI: https://doi.org/10.5334/dsj-2023-035 | Journal eISSN: 1683-1470
Journal RSS Feed
Language: English
Submitted on: Dec 15, 2022
|
Accepted on: Jun 22, 2023
|
Published on: Sep 18, 2023
Published by: Ubiquity Press
In partnership with: Paradigm Publishing Services
Publication frequency: 1 issue per year
Keywords:
data management plan,
DMP,
research data management,
RDM,
data management quality,
research data,
pandemic,
outbreak,
data services harmonisation,
data reuse,
FAIR principles,
data stewards

© 2023 Romain David, Audrey S. Richard, Claire Connellan, Katharina B. Lauer, Maria Luisa Chiusano, Carole Goble, Martin Houde, Isabel Kemmer, Antje Keppler, Philippe Lieutaud, Christian Ohmann, Maria Panagiotopoulou, Sara Raza Khan, Arina Rybina, Stian Soiland-Reyes, Charlotte Wit, Rudolf Wittner, Rafael Andrade Buono, Sarah Arnaud Marsh, Pauline Audergon, Dylan Bonfils, Jose-Maria Carazo, Remi Charrel, Frederik Coppens, Wolfgang Fecke, Claudia Filippone, Eva Garcia Alvarez, Sheraz Gul, Henning Hermjakob, Katja Herzog, Petr Holub, Lukasz Kozera, Allyson L. Lister, José López-Coronado, Bénédicte Madon, Kurt Majcen, William Martin, Wolfgang Müller, Elli Papadopoulou, Christine M.A. Prat, Paolo Romano, Susanna-Assunta Sansone, Gary Saunders, Niklas Blomberg, Jonathan Ewbank, published by Ubiquity Press
This work is licensed under the Creative Commons Attribution 4.0 License.

Previous articleVolume 22 (2023): Issue 1Next article