Slides for MIMIx, MIAPAR, MIABE

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.
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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
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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.
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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
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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.
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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.
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