CoRTecS

PPSE

Plateforme Protéomique Strasbourg Esplanade

Biologie cellulaire | Imagerie | Biologie moléculaire | Biochimie | Génomique | Biologie systémique | Développement | Biologie structurale

The core facility

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Biologie cellulaire, Imagerie, Biologie moléculaire, Biochimie, Génomique, Biologie systémique, Développement, Biologie structurale Plateforme Protéomique Strasbourg Esplanade

  • Head Manager of the core facility Jean-Luc IMLER
  • Scientifical Manager Philippe HAMMANN
  • Technical Manager Philippe HAMMANN
  • FR 1589 - IBMC / Institut de biologie moléculaire et cellulaire
  • CNRS, UNIVERSITE DE STRASBOURG
  • Campus centre : Esplanade
  • Monosite
  • Service delivery
    • to the academic community
    • to the socio-economic world
  • Collaborations of research
    • with the academic community
    • to the socio-economic world
  • Affiliated institution of administrative supervision
    • CNRS
    • UNIVERSITE DE STRASBOURG
PPSE

Based at IBMC, the PPSE platform performs proteomic analyses for the research teams of the partner units of the Esplanade campus (IBMC UPR9022, IBMC UPR9002, IBMC UPR3572, IBMP UPR2357, GMGM UMR7156) but also for other academic or private laboratories.
The main application of the platform is the characterization of protein interactomes by mass spectrometry, previously enriched by affinity purification. The originality of the PPSE expertise consists in mastering the whole experimental sequence, from protein extraction and affinity purification to mass spectrometry analysis. The engineering team proposes to carry out for the researchers "tailor-made" for each interaction project, adapting the lysis techniques according to the starting material (mouse organs, insects, human cells, plant - roots, leaves, flowers, bacteria, yeasts, etc.). Each step has been optimized to guarantee fluidity and experimental reproducibility. This know-how is essential to successfully identify and quantify protein interaction differentials or protein expression differentials. The final bioinformatics analysis, also on demand, allows to make the data speak for the valorization of the research work.

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Expertises

Scientific expertise

  • Mass spectrometry
  • Proteomics
  • Protein-protein interaction network
  • RNA-protein interaction network
  • Protein expression differential
  • Relative quantification by LC-MSMS
  • Post-translational modifications
  • Bioinformatics for proteomics

Technical expertise

  • Identification of protein partners: coIP, RNA-pulldown, His Pulldown, BioID
  • LC-MSMS analysis
  • Relative quantification without labeling (labelfree Spectral count or XIC)
  • Validation by R statistical analysis
  • Functional enrichments

Resources

Main equipments

  • LC MSMS System orbitrap Thermo : easy nLC 1000 - Qexactive +
  • LC MSMS System Bruker : nano Elute2- TIMS TOF pro 2
  • LC MSMS System QTOF Sciex : U3000 RSLC - Triple TOF
  • Set of equipment for sample preparation, protein extraction, affinity purification and enzymatic digestion of proteins

Software resources / Data bases

  • LC MSMS analysis software Proline, Profi consortium
  • LC MSMS analysis software Proteome Discoverer, Thermo
  • LC MSMS analysis software (real time) PASER, Bruker
  • Search engines for protein identification Mascot, Sequest, Peaks, ProLucid

Examples of service delivery

  • Customized AP MS analysis (bacteria, insects, plants, human, mammals, etc...) such as co-immunoprecipitation, His pull down, GST pull down, RNA pulldown, bioID
  • Custom protein expression differential (bacteria, insects, plants, human): relative quantification by LC MSMS, labelfree spectral count technique and XIC peptide area.
  • Protein content analysis (custom samples) and quality control after purification of recombinant proteins

Recent collaborative projects

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