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@FAIR-MI

FAIR-MI

Toward Findable, Accessible, Interoperable and Reusable (FAIR) Representations of Microbial Interactions (MI)

Welcome to the FAIR-MI Github

Rationale

🌍 Microorganisms from multiple taxonomic domains engage in intermicrobial interactions to form communities in all biomes. 🦠 Even with identical community members, these complex interactions can vary in time, space and due to changes in abiotic factors. 🧰 The range of in silico, in vitro or in vivo methods used to study these interactions is equally wide, and all of them produce a large amount of data.

➡️ However, there is no standard to report intermicrobial interactions and a dire need for an open access platform to datasets that support this evidence!

Why FAIR-MI?

This organization is a way to gather initiatives that pave the way towards Findable, Accessible, Interoperable and Reusable (FAIR) Representations of Microbial Interactions (MI).

Together as a community, we can develop Minimum Information about Intermicrobial Interaction Data (MIIID; pronounced /miːd/ like 'mead').

Contact and further resources

📫 If you have questions, feel free to contact Alan (apacheco [AT] biol.ethz.ch) or Charlie (cpauvert [AT] ukaachen.de). If you have technical questions regarding the MIIID schema or want to join the Github organisation, please contact Charlie (cpauvert [AT] ukaachen.de).

We explained the need for FAIR-MI and MIIID in our Perspective paper:

Pacheco, A. R., Pauvert, C., Kishore, D., & Segrè, D. (2022). Toward FAIR Representations of Microbial Interactions. MSystems, 7(5). https://doi.org/10.1128/msystems.00659-22.

We showcased a way to describe and validate interaction data in our poster:

Pauvert, C., & Pacheco, A. R. (2023). Microbial interactions descriptions for humans and machines alike. Congress of European Microbiologists (FEMS), Hamburg, Germany. Zenodo. https://doi.org/10.5281/zenodo.8214358

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  1. miiid-schema miiid-schema Public

    A metadata schema for the Minimum Information about Intermicrobial Interaction Data (MIIID) using LinkML

    Python 3

  2. validamiiid validamiiid Public

    Edit and validate description of intermicrobial interaction data in an interactive fashion. Validation is done against the MIIID metadata schema.

    R 2

Repositories

Showing 3 of 3 repositories
  • miiid-schema Public

    A metadata schema for the Minimum Information about Intermicrobial Interaction Data (MIIID) using LinkML

    FAIR-MI/miiid-schema’s past year of commit activity
    Python 3 GPL-3.0 0 6 (2 issues need help) 2 Updated Aug 14, 2023
  • .github Public
    FAIR-MI/.github’s past year of commit activity
    0 GPL-3.0 0 0 0 Updated Aug 10, 2023
  • validamiiid Public

    Edit and validate description of intermicrobial interaction data in an interactive fashion. Validation is done against the MIIID metadata schema.

    FAIR-MI/validamiiid’s past year of commit activity
    R 2 GPL-3.0 0 3 0 Updated Aug 4, 2023

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