Caltech
Proteome Exploration Laboratory
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Facilities

Sample Prep

BI-209

The Proteome Exploration Laboratory has a dedicated sample preparation room that the staff and collaborators utilize to either stage samples for immediate LC-MS analysis or work through a series of established protocols to prepare the samples for analysis. We work with researchers both on and off campus, providing expert guidance and hands-on services for LC-MS analysis. BI-209 is equipped with a laminar flow hood, CentriVap lyophilizer system, and two Agilent 1100/1200 HPLC systems used for offline peptide/protein desalting and fractionation.

Sample Prep Room BI-206
Sample Prep Room BI-206
Thermo Vanquish UHPLC

Vanquish UHPLC System

  • stable flow rates over a wide range of chromatographic applications
  • auto sampler, auto injector, column thermal regulation
  • uv and fluorescence detectors
  • automated fraction collection by time or peak

Complex sample fractionation | Sample cleanup

Mass Spectrometry

BI-206 and BI-208

The Proteome Exploration Laboratory has two specialized laboratories housing state-of-the-art mass spectrometers.

Mass Spec Room BI-208
Thermo Orbi-Trap Elite

Orbitrap Fusion Tribrid Mass Spectrometer

  • Ultra-high resolution for quantitation of isobaric compounds (TMT)
  • Multiple fragmentation methods; CID, HCD, ETD and EThcD
  • Targeted workflows to quantify very low level peptides
  • Synchronous Precursor Selection
Quantitation TMT or Label-Free | PTM Mapping
Thermo Fusion Orbi-Trap

Orbitrap Eclipse Tribrid Mass Spectrometer

  • Ultra-high resolution (500k)
  • Top-down proteomics
  • Multiple fragmentation methods: CID, HCD, ETD, EThcD and UVPD
  • PTCR (Proton Transfer Charge Reduction)
  • FAIMS (High-Field Asymmetric Waveform Ion Mobility Spectrometry )
  • Real-Time Search and Synchronous Precursor Selection
Quantitation by TMT or Label-Free | PTM Mapping | Intact Protein
QEHF

Q Exactive™ HF Hybrid Quadrupole-Orbitrap™ Mass Spectrometer

  • High-resolution MS1 and MSn
  • HCD fragmentation
Protein ID | Label-Free Quant | SILAC
Qtrap

SCIEX QTRAP 6500 Mass Spectrometer

  • Triple quadrupole-linear ion trap system
  • Eksigent ekspert nanoLC 425 for nanoflow or microflow LC-MS
  • SelexION gas phase fractionation
Targeted MRM | Absolute or Relative Quant