MS2MODELS MS2MODELS P. Tuffry Guillaume Postic Postdoctoral - - PowerPoint PPT Presentation

ms2models ms2models
SMART_READER_LITE
LIVE PREVIEW

MS2MODELS MS2MODELS P. Tuffry Guillaume Postic Postdoctoral - - PowerPoint PPT Presentation

Journes du GDR BIM : GT MASIM 05 Nov. 2019 MS2MODELS MS2MODELS P. Tuffry Guillaume Postic Postdoctoral fellow, IFB, RPBS O. Schiltz G. Labesse Interactomics Interactomics What? Describes networks of interactions between


slide-1
SLIDE 1

MS2MODELS MS2MODELS

Guillaume Postic

Postdoctoral fellow, IFB, RPBS

  • G. Labesse
  • O. Schiltz
  • P. Tufféry

Journées du GDR BIM : GT MASIM 05 Nov. 2019

slide-2
SLIDE 2

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
slide-3
SLIDE 3

IFB

slide-4
SLIDE 4

: MS based proteomics resources, ProteoRE

slide-5
SLIDE 5

Web server @ RPBS platform Input: list of FASTA sequences Output: Tables and graphs

slide-6
SLIDE 6
slide-7
SLIDE 7

Comparative modelling possible?

slide-8
SLIDE 8
slide-9
SLIDE 9
slide-10
SLIDE 10
slide-11
SLIDE 11

Additional partners? → Eukaryotic Linear Motif (ELM) resource

slide-12
SLIDE 12

Cytoscape.js Cytoscape.js

  • Input proteins
  • Missing partners
  • BioGRID
  • Input proteins
  • Missing partners
  • BioGRID
slide-13
SLIDE 13

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

slide-14
SLIDE 14

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

  • Domains
  • Motifs
  • PTMs
  • Mutagenesis sites
  • Antigenic sequences
slide-15
SLIDE 15

: MS based proteomics resources, ProteoRE

slide-16
SLIDE 16

Inserm, RPBS (Paris) Pierre Tufféry Julien Rey Guillaume Postic CEA, I2BC (Saclay) Jessica Andreani Raphaël Guerois CEA, BIG (Grenoble) Christophe Bruley Virginie Brun Yohann Couté Myriam Ferro Yves Vandenbrouck CNRS, LSMBO (Strasbourg) Alexandre Burel Sarah Cianferani Agnès Hovasse CNRS, CBS (Montpellier) Gilles Labesse Jean-Luc Pons Victor Reys CNRS, IPBS (Toulouse) Odile Schiltz Emmanuelle Mouton-Barbosa Marie-Pierre Bousquet Julien Marcoux

MS2MODELS: the people MS2MODELS: the people