= Overview =

== Exchange format ==

It already exists an standard exchange format: PSI-MI. Two possibilities:

 * [http://www.psidev.info/index.php?q=node/60 "PSI-MI XML"]
 * PSI-MI TAB  (tabulated)
   * [ftp://ftp.ebi.ac.uk/pub/databases/intact/current/psimitab/README Standard]
   * Expanded (!IntAct) - Additional columns to the standard, containing information like bait-prey, types, cross-references...

== Service Providers ==

Service providers at the Hackathon

 * [http://www.ebi.ac.uk/intact IntAct] (Bruno Aranda, EBI)
 * [http://dip.doe-mbi.ucla.edu/ DIP] (Lukasz Salwinski, UCLA)
 * [http://string.embl.de STRING] (Michael Kuhn)
 * ... (please add yourself)

== Service consumers ==

 * Cytoscape (Keichiro Ono)
 * ... (please add yourself)

= Existing Web Services =

== !IntAct Web service ==

!IntAct already provides a very simple SOAP based web service (http://www.ebi.ac.uk/~intact/devsite/remote/binarysearch_ws.html)

= Objectives =

=== Improve the existing !IntAct web service ===

Note: the !IntAct web service is in fact a web service that searches on a PSI-MI TAB file that contains all the interactions present at !IntAct. All the (java) code 
generated at !IntAct is open-source and licensed under the Apache Commons License 2.0. It means that this web service implementation could be used over any PSI-MI TAB file (not just the !IntAct ones).

 * Taverna client
 * !BioMoby
 * Check use-cases:
   * Get interaction or partners not only using Uniprot IDs (the primary identifiers for interactors used in !IntAct)
 
=== Define a common Interaction Query Language ===

It would be useful to have a common query language for interactions. Options:

 * [wiki:PSICQUIC] - attempt to create a REST-based query language.
 * [http://lucene.apache.org] Lucene based searches over PSI-MI tab files - this is what is currently used in !IntAct.
   * This option seems to be the simplest according to the participants in the group, and could be a starting point.

=== Define specific use-cases ===

Cytoscape, as active consumer, has a bunch of use cases that can be a starting point to discuss how interaction data could be mined/queried.

=== Interaction DAS Server ===

Possibility: http://www.dasregistry.org/extension_interaction.jsp

Problems: it does not comply neither with the PSI-MI specification nor with the DAS one.

= Other Resources =

[http://www.nature.com/nbt/journal/v25/n8/abs/nbt1324.html "The minimum information required for reporting a molecular interaction experiment (MIMIx)"]

= Important reminder =

This is a wiki. Please, participate with your thoughts/additions/comments! :)