MS2MODELS - École Polytechnique

MS2MODELSMS2MODELS

Guillaume PosticPostdoctoral fellow, IFB,

RPBS

G. LabesseO. Schiltz

P. Tufféry

Journées du GDR BIM : GT MASIM 05 Nov. 2019

InteractomicsInteractomics

What?• Describes networks of interactions between biomolecules• Most comonly: protein-protein interactions (PPIs) networkse.g. metabolic, signaling pathways

Why?• Network medicine: predict how a network reacts toperturbations (e.g. the removal of a protein or anInteraction, 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 platformInput: list of FASTA sequences

Output: Tables and graphs

Comparativemodellingpossible?

Additional partners?→ Eukaryotic Linear Motif (ELM) resource

Cytoscape.jsCytoscape.js

● Input proteins

● Missing partners

● BioGRID

● Input proteins

● Missing partners

● BioGRID

Example of interactome: 20S proteasome (n = 192 input proteins)Nodes >1500; edges >5000

For each node (protein chain): annotations and 3D viewingannotations and 3D viewing

ProtVistaProtVista

NGL ViewerNGL Viewer

Hoksza, D., Gawron, P., Ostaszewski, M., & Schneider, R. (2018).MolArt: a molecular structure annotation and visualization tool.Bioinformatics, 34(23), 4127-4128.

- Domains- Motifs- PTMs- Mutagenesis sites- Antigenic sequences- …

: MS based proteomics resources, ProteoRE

Inserm, RPBS (Paris)Pierre TufféryJulien ReyGuillaume Postic

CEA, I2BC (Saclay)Jessica AndreaniRaphaël Guerois

CEA, BIG (Grenoble)Christophe BruleyVirginie BrunYohann CoutéMyriam FerroYves Vandenbrouck

CNRS, LSMBO (Strasbourg)Alexandre BurelSarah CianferaniAgnès Hovasse

CNRS, CBS (Montpellier)Gilles LabesseJean-Luc PonsVictor Reys

CNRS, IPBS (Toulouse)Odile SchiltzEmmanuelle Mouton-BarbosaMarie-Pierre BousquetJulien Marcoux

MS2MODELS: the peopleMS2MODELS: the people