Report Describing EATRIS-Plus FAIRification Template and Workflows

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dc.contributor.affiliationPalacký University, Olomouc-Petr Džubák
dc.contributor.authorPetr Džubák
dc.date.accessioned2025-04-29T14:05:43Z
dc.date.issued2022-08-12
dc.date.issued2022-08-12
dc.descriptionThe key scientific output of the EATRIS-Plus project is to develop a Multi-omic Toolbox available for researchers in order to have a better understanding of the molecular profiles in personalised medicine. Within work packages 1, 2, and 3, we implement practices based on the FAIR (Findability, Accessibility, Interoperability, and Reusability) principles to ensure reproducibility of our work and to make the multi-omics cohort data reusable for future translational research. The aim of this deliverable (D2.1) is to describe the EATRIS-Plus FAIRification process, and list standards, formats, and tools used in this process. As part of this deliverable (D2.1), we describe the EATRIS-Plus FAIRification strategy (Appendix 1: EATRIS-Plus FAIRification strategy) to make the generated multi-omics cohort data reusable for future translational research. We identified relevant data and metadata standards to report and describe data generated by different omics technologies. The existing ISA (Investigation, Study, Assay) metadata framework (https://isa-tools.org/)1 is used to capture experimental metadata. ISA-Tab metadata is used and supported by a wide range of single-omics data repositories (https://www.isacommons.org/). We develop a Jupyter notebook to generate ISA-Tab files for the multi-omics data set that complies with reporting guidelines for individual omics types. Importantly, the ISA framework enables the use of controlled vocabularies and ontologies supporting both human-readability and machine-readability. The ISA-Tab template files being developed in EATRIS-Plus will serve as templates for collecting the required metadata for integration of multi-omics in the context of research projects around personalized health and personalized medicine. They will be published and shared and as part of the EATRIS-Plus multi-omics toolbox.
dc.identifierhttps://doi.org/10.5281/zenodo.8069891
dc.identifier.urihttps://datakatalogi.helsinki.fi/handle/123456789/6151
dc.rights.licensecc-by-4.0
dc.subjectFAIR
dc.subjectmultiomics
dc.subjectdata
dc.subjectmetadata
dc.subjectmetabolomics
dc.subjectRNAseq
dc.subjectWhole Genome Sequencing
dc.subjectWGS
dc.subjectpersonalised medicine
dc.subjectpersonalized medicine
dc.subjecttranslational research
dc.subjectmicroRNA
dc.subjectqRT-PCR
dc.subjectDNA methylation sequencing
dc.subjectEM-seq
dc.subjectProteomics
dc.subjectTargeted metabolomics
dc.subjectGene
dc.subjectGenomic coordinate
dc.subjectFAIR Data
dc.subjectGithub
dc.subjectpersonalized health
dc.subjectreproducibility
dc.subjectanalysis workflows
dc.titleReport Describing EATRIS-Plus FAIRification Template and Workflows
dc.typeworkflow

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