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Core facility satellite meeting, sessions 3 & 4 – Sponsored by Luxendo, Bruker

June 7, 2022 from 15:00 to 17:00

Session 3: Bioimage data management and integrated pipelines

Schedule: 15:00 – 16:30 pm EEST (90 min)

Organizers: Oliver Biehlmaier, Camilo Guzman, Nadia Halidi and Caterina Strambio-De-Castillia

Chair: Oliver Biehlmaier, Biozentrum, University of Basel

Section 1 – FAIR image data and metadata standards 15:00 – 15:40 

  1. How can we agree on standards for metadata such that the data can be organised, found, reproduced, and re-used?
  2. How do we ensure the adoption of such standards?     

Panel discussion 

  • Short introduction by Oliver Biehlmaier (5 minutes)
  • Panel discussion: each panellist will have the chance to introduce themselves for 3 minutes, followed by an open discussion with questions from the audience:
    • Sebastien Besson, OME, University of Dundee (Virtual) 
    • Josh Moore, OME, German BioImaging, University of Dundee 
    • Caterina Strambio De Castillia, 4DN, BINA, QUAREP-LiMi, Biomedical Imaging Group, UMass Chan Medical School
    • Matthew Hartley, EMBL-EBI
    • Susanne Kunis, University of Osnabrueck; virtual
    • Stefanie Weidtkamp-Peters, University of Dusseldorf (virtual)  
    • Sylvia Le Dévédec ,Open Science Community Leiden, Universiteit Leiden (virtual) 

Section 2 – Education on the importance of Image Data Management 15:40 – 16:10 

 What is the status of Image Data Management at your institution?

  1. Which format/planform is / should be used to teach about these topics? 
  2. Which is the key information to be transmitted?
  3. How do we adapt the message to make it appropriate for different interest groups (e.g., imaging scientists/facility managers, students and trainees, group leaders)?

Invited presentations (7 min each)

  • Ken Ho, Crick Institute
  • Nadia Halidi , Advanced Light Microscopy Unit (ALMU), Centre for Genomic Regulation
  • Caterina Strambio De Castillia , 4DN, BINA, QUAREP-LiMi, Biomedical Imaging Group, UMass Chan Medical School

Discussion(16:00 – 16:10)

Section 3 – Integration of Image Data Management with the management of other data types 16:10 – 16:30 

  • The integration of OMERO with iRODS, Josh Moore, OME, German BioImaging, University of Dundee (16:10 – 16:25)

Discussion (16:25 – 16:30)


Session 4 – Update on the global searchable microscopy database (follow-up of CF session 2021) 

Schedule: 16:30 – 17:00 EEST (30 min)

Chair: Stefan Terjung, Advanced Light Microscopy Facility, EMBL-Heidelberg

  • Nikki Bialy, BINA Program Coordinator, Morgridge Institute for Research
  • Vanessa Orr, BINA Program Administrator, Morgridge Institute for Research



Sponsored by Luxendo, Bruker