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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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  • 1. EBI is an Outstation of the European Molecular Biology Laboratory. MIMIX, MIAPAR, MIABE
  • 2. MIMIx (molecular interactions) 1. Published 2007 (Orchard et al NBT) 2. Scope – experiments describing molecular interactions, in practise mainly PPIs 3. XML and Tab-deliminated data formats. PSI-MI CV supported by established editorial board. 2
  • 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 3
  • 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. 4
  • 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 5
  • 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. 6
  • 7. 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. 6