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Mibbi mim ix

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Slides for MIMIx, MIAPAR, MIABE

Slides for MIMIx, MIAPAR, MIABE

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Mibbi mim ix Presentation Transcript

  • 1. MIMIX, MIAPAR, MIABE
  • 2. MIMIx (molecular interactions)
    • Published 2007 (Orchard et al NBT)
    • Scope – experiments describing molecular interactions, in practise mainly PPIs
    • XML and Tab-deliminated data formats. PSI-MI CV supported by established editorial board.
  • 3. Level of implementation
    • Adopted by all known major databases, either directly as part of the data model or through indirect mapping on export.
    • Extensive tool development e.g. Cytoscape, R Bioconductor interface
    • PSICQUIC web service implemented by 15 databases allowing users to access >15million binary interactions with a single query
  • 4. Status, contributors, funding
    • Reviewed annually at PSI meeting, CV updated released several times/year.
    • Approx. 14 databases actively contributing + tool developers + large scale data producers.
    • Lead to establishment of the IMEx consortium ( www.imexconsortium.org ) – sharing of curation activities across 10 participating databases, common curation manual, production of a single, non-redundant dataset
    • Activities funded by FP7 CSA grant (PSIMEx) + individual database grants + PSI sponsors.
  • 5. MIAPAR
    • Extension of MIMIx to encompass protein-affinity reagent (Ab-Ag) interactions
    • Published 2010 (Bourbeillon et al, NBT) - extension to PSI-MI XML format, dedicated CV
    • More difficult to establish, area dominated by commercial companies
    • Large EC project, Affinomics, supporting the effort
  • 6. MIABE
    • Extension of MIMIx to encompass bioactive entity-target reagent (Drug-Target) interactions
    • Produced under auspices of EBI Industry group/PSI
    • Currently under review (NRDD) - uses PSI-MI XML format and CV
    • Supported by ChEMBL and PubChem – ChEMBL already has PSICQUIC service in place.