This version brings two major features:

• Interactome query #17
• Cluster-based color layout #53

Plus some minor fixes #54, #56, #61, #63

This version brings a lot of fixes and improvements.

• We modified the credit window to add more information #28 and #34
• We improved the result panel to make it more responsive and more complete (we added information in a human-readable format, we added links, and so on) #30
• We fixed some details in the visual style to make it more visible in huge network #42
• We added human readable biological information for the layout #43
• We used a new webservice called Ontology Lookup Service to translate psi-mi IDs for more readability #47
• Finally, this version brings license information #29

This version brings the following features:

• GO slimmer #15
• Network layout #22

Also, we corrected the bugs #38, #39 and #41.

This version brings several improvements in the setting window including:

• A custom organism list
• An InParanoid cache loader

Also, we corrected the network generation and the ortholog search in order to correct the bug #21.

This version brings the PMB protein ortholog cache. Once an ortholog have been searched on InParanoid, the result is kept in the PMB cache and can be recovered at the next protein ortholog search without querying InParanoid.
This version also brings corrections and optimization to reduce web requests during network generation (other than just the ortholog cache).

This version brings display improvements mostly through a new query window design and a dynamic visual style. The result panel was completed to display interaction informations. A credit window was also added.

This version brings the network generation as described in:

Echeverría PC, Bernthaler A, Dupuis P, Mayer B, Picard D (2011) An interaction network predicted from public data as a discovery tool: application to the Hsp90 molecular chaperone machine. PLoS One 6: e26044.doi:10.1371/journal.pone.0026044.

A new PPiMapBuilder panel was added at the right of Cytoscape network view which highlight protein data and links them to official databases.

This version allow the user to save the databases selected by default. Also, the user can generate networks for several proteins in the same time. Finally, the app retrieve protein data from UniProt by a simple xml parse (using the JSoup library).

Interaction data retrieved from PSICQUIC MITAB 2.5 format are now correctly displayed in the Cytoscape Data Table (as strings). Some improvements may be done on data format management, particularly to fit with Cytoscape filtering.

Allows the user to specify the protein of interest (POI) by using its uniprot ID. Allows the user to choose the reference and secondary organisms among a predefined list.
Generates a network for the POI, but also one for each of its orthologs. The orthologs are retrieved using the InParanoid database. The networks obtained for the POI and its orthologs are not merged in this version.