Emory Integrated Proteomics Core
Emory University
Contact: Pritha Bagchi, PhD
Phone: 404-778-8471
The Emory Integrated Proteomics Core (EIPC) provides comprehensive protein analytical services using cutting-edge mass spectrometry (MS) technologies. Directed by Dr. Nicholas T. Seyfried, the core offers access to a variety of high-end mass spectrometers and computational resources for sophisticated data analysis.
The EIPC is located in the 525 Whitehead Biomedical Research Building. The core provides office space on the 4th floor of the Rollins Research Center, which is used for computational services, meeting customers, and weekly EIPC team meetings.
If you use the EIPC for your research, please acknowledge the EIPC in your publications and include its RRID (RRID:SCR_023530).
Mass Spectrometers and Capabilities
EIPC houses several mass spectrometers— Q Exactive HF-X Hybrid Quadrupole-Orbitrap mass spectrometer and Orbitrap Fusion Lumos Mass Spectrometer with Electron Transfer Dissociation (ETD). Each instrument is coupled with an autosampler and HPLC system. The system allows automated capillary LC-MS/MS runs for bottom-up analyses with high resolution. These mass spectrometers are capable of detecting peptides at subfemtomolar level, identifying hundreds to thousands of proteins in complex mixtures, mapping posttranslational modification sites, and quantifying proteins based on label-free methods or different labeling strategies (e.g. TMT).
Q Exactive HF-X Hybrid Quadrupole-Orbitrap mass spectrometer (Thermo Fisher Scientific)
The Q Exactive HF-X mass spectrometer harbors a high-field (HF) Orbitrap mass analyzer and an Advanced Quadrupole Technology (AQT) resulting in higher resolution (240,000 at m/z 200) and scan speed (up to 40 Hz). A High-Capacity Transfer Tube (HCTT) and electrodynamic ion funnel also contributes towards the improved sensitivity of the instrument. This mass spectrometer enables fast identification and analysis of peptides, label-free and TMT quantitation.
Orbitrap Fusion Lumos Mass Spectrometer with Electron Transfer Dissociation (ETD) (Thermo Fisher Scientific)
The Fusion Lumos mass spectrometer has three mass analyzers— quadrupole, orbitrap, and linear ion trap— as in the fusion tribrid system. The instrument houses an upgraded ion optics (High-Capacity Transfer Tube and Electrodynamic Ion Funnel), an Advanced Quadrupole Technology (AQT), and a new ETD-HD feature. The MS/MS acquisition rates of Lumos is up to 20 Hz for both Orbitrap and linear ion trap measurements. Ultra-high-field Orbitrap mass analyzer increases the resolving power up to 500,000 FWHM at m/z 200. Synchronous Precursor Selection (SPS) feature significantly augments the number of peptides and proteins identified and improves quantitative accuracy in TMT experiments. This feature is also available in other Fusion instruments. Lumos offers several fragmentation modes, like CID, HCD, ETD, and EThcD, that are helpful for PTM analysis.
UltiMate 3000 RSLCnano (Thermo Fisher Scientific)
UltiMate 3000 RSLCnano system can be operated with nano-, capillary-, and micro-flow options. ProFlow technology in this system improves nano flow rate control resulting in high retention time precision that is crucial for LC-MS based proteomics methodology. The pressure capacity of this UHPLC is up to 860 bar (12473 psi).
Liquid Handling Station (LHS)
The BRAND Liquid Handling Station handles routine pipetting tasks (e.g., BCA assay, protein digestion, aliquoting, etc.) at high speed and with the highest precision.
Computing
The Emory Integrated Proteomics Core (EIPC) has multiple search engine platforms including Sequest and Andromeda. Core facility personnel have access to high-end workstations capable of processing both raw and post-analyzed data.
Shared equipment includes gel imagers for chemiluminescence and fluorescence, equipment for protein gel electrophoresis, a LiCor fluorescent system for quantitative immunoblotting. Fluorescence and standard microplate readers are available for protein quantification. High-speed and ultra-centrifuges are available as core equipment. There are sliding microtomes, standard and dual beam spectrophotometers, cryostats, pH meters, balances, oven, refrigerators, hot plates, stirrers, -70 C freezers, and other standard equipment.
More about this core facility at Emory University »
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