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Group Session July 3, 2024

Evaluating Multi-Omics Data Standard Integration Challenges and Building Solutions

Plenary: RDA 23rd Plenary Meeting – San José, Costa Rica

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Meeting objectives

The objective for this meeting will be to introduce and discuss our first set of completed outputs and deliverables in addition to upcoming WG activities. During this session we will hear from invited speakers representing relevant Multi-omics data standard integration efforts with use-cases focused on Multi-omics data standards integration challenges and/or developing integration solutions in alignment with our RDA Multi-omics WG goals and work plan outlined in our case statement. This working group session is a great opportunity for new members to contribute their ideas and broader perspectives to existing WG goals and deliverables. Outcomes from this session serve to promote new diverse collaborations and strengthen ongoing Multi-omics data standard harmonization efforts and educational awareness across disciplines at a global level as we move forward.

Meeting presenters

Lindsey Anderson (Co-chair)|David Molik (Co-chair)|Tim Van Den Bossche (Co-chair)|Invited Speaker 1: Tim Van Den Bossche (Ghent University|CompOmics) - "Metadata in metaproteomics: integrating MIxS into SDRF-Proteomics"|Invited Speaker 2: Bert Droesbeke (Belgian ELIXIR Node|VIB Data Core) - "MARS: Multi-omics Adapter for Repository Submissions"|Invited Speaker 3: Katherine Heal (PNNL|NMDC) - “Modeling mass spectrometry metadata in the National Microbiome Data Collaborative to enable multi-omic data reusability”

Meeting agenda

1. Welcome and Introduction (background overview of WG aims, objectives, deliverables, milestones, etc.) – 5 min.
2. Progress Updates and Review of Completed WG Deliverables: Omics Landscape Review (Deliverable 1a) and the Multi-Omics Standards Collection located at FAIRsharing (Deliverables 1b) – 20 min.
3. WG Deliverable Feedback & Open Discussion – 10 min.
4. Invited Talks/Presentations: “Multi-omics Data Standard Integration Challenges, Gaps, and Community Use-Case Developments” – 30 min. + 10 min. Q&A
5. Closing Remarks & Next Steps – 5 min.

Target audience

This meeting aims to bring together existing members and potential new members in broadening the range of new perspectives contributing to our working group goals and ongoing deliverables. This WG session seeks to promote diverse collaborations among Researchers (data generators/users), Data Support Professionals (data/project managers), Developers (data consumers/generators), Data Curators (data quality assurance assessors), Data Publishers (service providers) interested in Multi-omics data and metadata standards integration across Genomics, Proteomics, Metabolomics, and Lipidomics domain areas and technologies.

Group Activities and Scope

The RDA Multi-Omics Metadata Standards WG is a multidisciplinary working group is comprised of a variety of subject matter experts and research support professionals across Omics technology domains in areas of Genomics, Proteomics, Metabolomics, and Lipidomics. Multi-omics data integration involves merging different Omics data types and metadata capture methods using high-throughput technologies for quantification and characterization of large complex pools of biological molecules. A unrelenting challenge Multi-omics data integration often faces is the vast array of fragmented data types and data standards (metadata reporting guidelines, terminologies/ontologies, models/formats, and identifiers schemas) generated across the different Omics domains, making it difficult to manage and reuse prior to integration. This working group aims to provide clear recommendations and supporting deliverables based on careful curation and dissemination of evaluated Multi-omics community standards across domains that serve to support flexible harmonization of Multi-omics data and metadata standard integrations. Thus far, our working group has actively collected and curated >220 existing Omics domain data standards leveraging existing Omics records at FAIRsharing (in collaboration with the FAIRsharing WG) and additional domain affiliated resources in filling existing Multi-omics standard curation gaps with included data lifecycle application coverage. Based on our initial landscape review we have begun defining our selection criteria for down-selecting curated standards, both subject agnostic and domain-specific, for inclusion in our FAIRsharing Multi-Omics Standards Collection as a machine-actionable approach in creating an open community-driven Multi-Omics standards recommendation resource supporting future data management and sharing approaches.

We anticipate the completion of our first set of deliverables (prior to VP23) outlined in our case statement, which includes a Landscape Review of existing Omics community standards (Deliverable 1a) and Multi-omics Standards Collection located at FAIRsharing (Deliverables 1b) as a result of our defined selection criteria activities. This session will serve to collect any relevant feedback or proposed revisions community stakeholders may have on our first set of deliverables, including all supplementary training materials supporting WG Multi-omics standard record criteria selections aggregated under our FAIRsharing Multi-Omics Collection. Following VP23, our WG will begin planning work for our next deliverable (crosswalk analysis of selected standard records aggregated under Deliverable 1b for identifying metadata reporting integration gaps and cross-domain standard element adoption opportunities).

Additional links to informative material

WG Case Statement: https://www.rd-alliance.org/rationale/rda-ofr-creating-a-multi-omics-metadata-schema-standard-reporting-matrix-wg/|Multi-omics Landscape Review (Deliverable 1a) : https://docs.google.com/spreadsheets/d/16FcvFbDjb1lBL71o0Lvf5mLk0MQ1Otspghwm4twfQ7I|WG VP22 Slides: https://doi.org/10.5281/zenodo.11552128|FAIRsharing Educational Material:

Short Group Status

The RDA Creating a Multi-omics Metadata Schema Standard Reporting Matrix WG was recognized and endorsed in December 2023. This WG has been very productive in the first 6 months following RDA endorsement and have begun producing our first set of deliverables for upcoming review. There is still great opportunity for new members to contribute their ideas and initiatives as we move forward in developing our next set of working deliverables. This WG is in active development and will produce a series of deliverables, as outlined in our case statement, by scope and sequence for subsequent recommendation as we progress.

Estimate of the required venue room capacity

Under 50 seats

Applicable Pathways

Data Infrastructures and Environments - Generalist
Data Infrastructures and Environments - Generalist
Training, Stewardship, and Data Management Planning
Semantics, Ontology, Standardisation
Discipline Focused Data Issues

Please indicate at least (3) three breakout slots that would suit your meeting.

Breakout 1. Tuesday, 12 November, 16:00-17:30 UTC
Breakout 3. Wednesday, 13 November, 14:00-15:30 UTC
Breakout 4. Wednesday, 13 November, 16:00-17:30 UTC
Breakout 6. Thursday, 14 November, 16:00-17:30 UTC