Thinking data management on different scales

Thinking data management on different scales Susanne Kunis These slides can be reused under the CC BY-SA 4.0 license unless mentioned otherwise Research Data Management •Logistical necessity •Ensures Integrity, reproducibility and transferability •Protects data loss •Fosters collaboration •Provides transparency PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck OPTIMIZEDMANAGEDDEVELOPMENTBASICINITIAL Status: Data value level: Interoperability: Management: Data silo level: 01 02 03 04 05 „If I want to share data, I coordinate it directly with my colleague” „ I find that I can easily discover, access, combine and publish data". INTERNATIONAL INDIVIDUAL Disorganised, ad hoc Deploy inter domain crosswalks Different data structures, subjective documentation; unnecessary data duplication, transfer, conversion; no central data storage and access interface; no objective/strategy Data are rich on context (full semantic); Standardised API; harmonized and interoperable data; coherence in format and context local single use low Asset to answer future questions high PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck Important spokes in the wheel Raise awareness of research data management importance; Teaching data management technics and tools Support and customized solutions for specific problems in the management of research data Technical infrastructure and related services that support researcher in data management throughout the research cycle Ensure quality, add metadata, and ensure compliance with standards and policies. PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck Important spokes in the wheel Data standards are necessary to break down data silos and create interoperability and coherence. They ensure that data retain their value and meaning and are usable, consistent and accurate. PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck Raise awareness of research data management importance; Teaching data management technics and tools Support and customized solutions for specific problems in the management of research data Technical infrastructure and related services that support researcher in data management throughout the research cycle Ensure quality, add metadata, and ensure compliance with standards and policies. Integration of data management in an existing ecosystem Department Biology Research groups 19 •Animal Physiology •Behavioural Biology •Bioanalytical Chemistry •Biochemistry •Biodiversity and Landscape Ecology •Biology Didactics •Biophysics •Botany •Cellular Communication •Ecology PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck •Genetics •Microbiology •Molecular Cell Biology •Molecular Cell Biophysics •Molecular Infection Biology •Neurobiology •Plant Physiology •Structural Biology •Zoology Department Biology Research groups Facility & Service iBiOs 19 12 Light Microscopy 6 Electron Microscopy 5 Cytometry & FACS Mass Spectrometry DeltaVision Leica SP5 Lattice Light-Sheet Olympus FV 1000 Olympus FV 3000 Olympus TIRF 1-LINE Zeiss LSM 510 Zeiss 880 AiryScan Zeiss Spinning Disk Olympus TIRF 3-LINE Olympus TIRF 4-LINE FRAP Olympus TIRF 4-LINE PAINT PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck Department Biology Research groups Facility & Service iBiOs 19 Mass Spectrometry Research Center CellNanOs PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck … Analysis workstations Research group specific server Research group member and desktop system Microscopy workstations Community/External Collaborators Central OMERO repository -> Linking of different data types Ecosystem 2022 PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck Parts of graphics from Autor: Seobility - Lizenz: CC BY-SA 4.0 … Analysis workstations Research group specific server Research group member and desktop system Microscopy workstations Community/External Collaborators Central OMERO & ELN instance -> Linking of different data types Ecosystem 2023 PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck Parts of graphics from Autor: Seobility - Lizenz: CC BY-SA 4.0 DEVELOPMENTBASICINITIAL Status: Data value level: Interoperability: Management: Data silo level: 01 02 03 „If I want to share data, I coordinate it directly with my colleague” „My project/group has agree to use a specific platform for data management“ „ I should manage data and strive to use appropriate standards and tools.” INSTITUTIONAL PROJECT/GROUP INDIVIDUAL Change management and continious improvements Disorganised, ad hoc Deploy basic structures and tools Deploy standards Different data structures, subjective documentation; unnecessary data duplication, transfer, conversion; no central data storage and access interface; no objective/strategy Reorganisation, definition of responsibilities, transfer of knowledge; definition, establishment, development and documentation of management and exchange processes; application of metadata to key data sets. Processes are standardised and integrated;Trainingon standards; rich metadata local working group local infrastructure single use low Resource to validate decisions middle single use low PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck What about the others… 2017 PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck 2019 •Open for all •>20 facilities involved •Exchange of experience and knowledge transfer in terms of data management RDM4mic “Research Data Management for Microscopy” 2017 PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck 2019 I3D:bio Information Infrastructure for BioImage Data 2017 2021 Man power to implement the needs of tools, support and training with focus on OMERO and light microscopy 2022-2024 PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck MANAGEDDEVELOPMENTBASICINITIAL Status: Data value level: Interoperability: Management: Data silo level: 01 02 03 04 „If I want to share data, I coordinate it directly with my colleague” „My project/group has agree to use a specific platform for data management“ „ I should manage data and strive to use appropriate standards and tools.” „ I have learnt how to apply data management policies and sharing has become much easier.” NATIONAL INSTITUTIONAL PROJECT/GROUP INDIVIDUAL RDM4mic Change management and continious improvements Disorganised, ad hoc Deploy basic structures and tools Deploy standards Deploy validation and verification processes, intra domain crosswalks Different data structures, subjective documentation; unnecessary data duplication, transfer, conversion; no central data storage and access interface; no objective/strategy Reorganisation, definition of responsibilities, transfer of knowledge; definition, establishment, development and documentation of management and exchange processes; application of metadata to key data sets. Processes are standardised and integrated;Trainingon standards; rich metadata Validation and verification processes; metadata described with consistent vocabulary local working group local infrastructure National and domain specific infrastructure single use low Resource to validate decisions middle Resource to make decisions high single use low PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck Research Data Management + Consistent vocabulary Rich metadata Value of data Asset to answer future questions Integral to desision making (must have) Resource to make decisions (good to have) Resource to validate decisions Single use Degree of interoperability Minimal metadata + Semantics* + Full Semantic interoperability Verify null hypothesis Defend decisions by reanalysing data Meta analysis using aggregated data „The sky is the limit“– implicit knowledge leads discovery efforts Use explicit knowledge from data „On the road to FAIR …lessons learnt.“, Saritha V Kuriakose *Semantic: the description of the meanings of values and of the names of data components PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck 2019 NFDI4BIOIMAGE 2017 2021 2023 2 1 1 2 1 2 1 1 2 4 1 3 3 11 1 2 4 2 121 1 1 3 2 2023-2028 National Researchdata Infrastructure for BioImaging: Implement national infrastructure and standards PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck Stefanie Weidtkamp-Peters. (2023, June 22). NFDI4BIOIMAGE - National Research Data Infrastructure for Microscopy and BioImage Analysis - Online Kick-Off 2023. Zenodo. https://doi.org/10.5281/zenodo.8070038 2019 NFDI4BIOIMAGE 2017 2021 2023 2 1 1 2 1 2 1 1 2 4 1 3 3 11 1 2 4 2 121 1 1 3 2 2023-2028 PoL Bio-Image Analysis Symposium Susanne Kunis | University Osnabrueck