Hands-on II

Current State Overview (WP1)

• Team presents the current status of WP1 (5-10 min).

• RCI-M WP1 team presents results from efforts to improve this current state (30-35 min).

Key Concepts and Tools

• Brief introduction to MetaboLights.
• Explanation of MetaboLights exemplar studies and their relevance.

• Discussion on ontologies:

  • Why ontologies are needed.
  • Which tools are useful to search for ontologies and map free text to ontology terms.
  • Which ontologies are relevant.
  • Whether and how to improve existing ontologies.

Future Directions

• Next steps toward FAIR data, including:
  • Linked data.
  • Improved search.
  • Better interoperability.
• Standards to consider (e.g., ISA).
• Overview of other initiatives that aim to improve the current state (15 minutes):
  • Examples: FAIRly, MetabolomicsHub, MOMSI.
  • Opportunities for synergies or collaborations.
  • Decide on session format (discussion, slides, survey, etc.).

Hands-On Session (1.5–2 hours)

• Practical work involving producing or improving annotations.

• Tasks:
  • Select up to three studies from MetaboLights (optionally pre-identified).
  • Evaluate and curate these studies.
  • Identify ontology gaps and missing information.
  • Improve annotations and find missing elements (e.g., publications, files).
• Logistics:

  • Define rules: self-paced or guided with checkpoints.

  • Possibly split participants into groups focused on:

    • Samples
    • Assays
    • Metabolites (results)
• Wrap-up with feedback to the whole group.