Journées du GDR BIM : GT MASIM 05 Nov. 2019 MS2MODELS MS2MODELS P. Tufféry Guillaume Postic Postdoctoral fellow, IFB, RPBS O. Schiltz G. Labesse
Interactomics Interactomics What? • Describes networks of interactions between biomolecules • Most comonly: protein-protein interactions (PPIs) networks e.g. metabolic, signaling pathways Why? • Network medicine: predict how a network reacts to perturbations (e.g. the removal of a protein or an Interaction, due to mutations) → Identify biomarkers of diseases and drug targets How? • Experimental techniques (Y2H, AP-MS…) → Limitations: • PPIs detection threshold • Homomultimers undetected • Interacting regions unknown
IFB
: MS based proteomics resources, ProteoRE
Web server @ RPBS platform Input: list of FASTA sequences Output: Tables and graphs
Comparative modelling possible?
Additional partners? → Eukaryotic Linear Motif (ELM) resource
● Input proteins ● Input proteins ● Missing partners ● Missing partners ● BioGRID ● BioGRID Cytoscape.js Cytoscape.js
Example of interactome: 20S proteasome (n = 192 input proteins) Nodes >1500; edges >5000
For each node (protein chain): annotations and 3D viewing annotations and 3D viewing ProtVista ProtVista - Domains - Motifs - PTMs - Mutagenesis sites - Antigenic sequences - … NGL Viewer NGL Viewer Hoksza, D., Gawron, P., Ostaszewski, M., & Schneider, R. (2018). MolArt: a molecular structure annotation and visualization tool. Bioinformatics , 34(23), 4127-4128.
: MS based proteomics resources, ProteoRE
MS2MODELS: the people MS2MODELS: the people Inserm, RPBS (Paris) Pierre Tufféry CEA, I2BC (Saclay) Julien Rey Jessica Andreani Guillaume Postic Raphaël Guerois CEA, BIG (Grenoble) CNRS, CBS (Montpellier) Christophe Bruley Gilles Labesse Virginie Brun Jean-Luc Pons Yohann Couté Victor Reys Myriam Ferro Yves Vandenbrouck CNRS, LSMBO (Strasbourg) CNRS, IPBS (Toulouse) Alexandre Burel Odile Schiltz Sarah Cianferani Emmanuelle Mouton-Barbosa Agnès Hovasse Marie-Pierre Bousquet Julien Marcoux
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