The multi-disciplinary efforts required in the scientific programme of INTERACTION PROTEOME are organised into four sub-projects (SP):

SP1: Tools for interaction analysis
SP1 is dedicated to the development of innovative proteomics technology to map protein-interaction networks and their cellular topology for the interaction analyses in SP2 and SP3.

Workpackages in SP1:
WP1 Instrumentation for mass spectrometry
WP2 Gel-free technology for mass spectrometry
WP3 Parallel optical detection of protein interactions in living cells
WP4 Cryo Electron tomography

SP2: Identification of interaction partners for protein domains
SP2 will generate (high throughput) data for important protein-protein interactions defined by bioinformatics and biomedical interest and by SP3, utilizing technology developed in SP1.

Workpackages in SP2:
WP5 Domain definition and expression
WP6 Interaction analysis in array format
WP7 Interaction analysis by bait fishing
WP8 In silico prediction of partners
WP9 Interpretation and database

SP3: Functional analysis of interactions
SP3 focuses on the validation of technologies and tools developed in SP1. It will perform functional analyses of protein-interactions in medically and biochemically relevant prokaryotic and eukaryotic (mammalian) model systems.

Work Packages in SP3:
WP10 Protein folding
WP11 Interaction mapping in cell signalling

SP4: Interactome database and modelling
SP4 provides the required bioinformatics infrastructure for the project, comprising the improvement of the public MINT database for the collection and dissemination of the interactome data; modelling and simulation of protein-interaction networks characterised in SP2 and SP3; and the dissemination of the technology developments to the scientific community.

Work Packages in SP4:
WP12 MINT database
WP13 Modelling
WP14 Interface to Scientific Community