Proteomics and Mass Spectrometry Core Laboratory
Augusta University

Contact: Wenbo Zhi, Ph.D.
Phone: 706-721-3508

The Proteomics and Mass Spectrometry Core Laboratory (PMSCL) at the Augusta University is a resource facility for the characterization and expression level quantitation of proteins (isolated or in an extract), as well as small molecules by mass spectrometry (MS), coupled with liquid chromatography, electrophoresis or other separation technologies. The mission of the Augusta University Proteomics and Mass Spectrometry Core Lab is to make the cutting edge proteomic technologies (mass spectrometry, UPLC, high-throughput immunoassays, etc) available to the entire Augusta University research community. While the Proteomics and Mass Spectrometry Core is a fee-for-service facility, a major goal is to become a research environment for multidisciplinary research and education that utilizes mass spectrometry and other proteomics technologies to resolve complex biological and medical problems.

The Augusta University Proteomics and Mass Spectrometry Core Lab is operated jointly by the Center for Biotechnology and Genomic Medicine. Services are available to all campus investigators as well as off campus investigators. Services offered by the facility include 1D/2D gel electrophoresis, protein identification, labeled and label-free comparative proteomics by Orbitrap MS, protein/small molecule quantification using targeted MS (PRM and SRM/MRM MS), high throughput protein immune-protein assays (384-well Luminex/ELISA assay), etc.

Equipment and services

Thermo Orbitrap Fusion™ Tribrid™ mass Spectrometer (MS) with Thermo Ultimate 3000 ultra-high performance liquid chromatography (UHPLC)

Spectrometer combines the best of quadrupole, ion trap and Orbitrap mass analysis in a revolutionary Tribrid architecture to provide unprecedented depth of analysis and ease of use. Innovative software and instrument design let you concentrate on your science rather than method development and instrument operation. The instrument enables scientists analyzing the most challenging low-abundance, high-complexity samples to identify more compounds faster, quantify more accurately and elucidate structures more thoroughly.

Services provided by the instrument includes:

  1. Protein identification and post-translational modification identification using shotgun proteomic technique
  2. Comparative and extensive shotgun proteomics using labeled or label-free methods
    • SILAC
    • TMT
    • iTRAQ
    • Label-free (spectrum counting)
  3. Targeted proteomic analysis using parallel reaction monitoring (PRM)
  4. Accurate measurement of small molecules and fragmentation analysis

Thermo Scientific TSQ Quantiva Triple-Stage Quadrupole mass spectrometer with Shimadzu Nexera UHPLC

The TSQ Quantiva triple quadrupole mass spectrometer exceeds the most stringent analytical requirements for quantitative 

performance with attogram-level sensitivity, unprecedented usability and exceptional robustness.

Services provided by the instrument includes:

  1. Protein/peptide quantification using selective reaction monitoring (SRM) and multiple reaction monitoring (MRM)
  2. Small molecules (metabolites, lipids, drugs, etc) quantification using SRM/MRM MS

FLEXMAP 3D Luminex system

The FLEXMAP 3D system combines differentially dyed fluorescent microsphere sets with an innovative instrument design to allow multiplexing of up to 500 unique assays within a single sample, both rapidly and precisely. It has the following features:

  • Fast - Higher Throughput (384 samples in less than one hour).
  • Flexible - High Plexing Capability (up to 500 different microsphere sets)
  • Versatile - Automation/LIS Compatibility (xPONENT® Software)
  • Reliable

Services provided by the instrument includes:

  1. High throughput and multiplexing LUMINEX assays for proteins
  2. Single nucleotide polymorphisms (SNPs) analysis

Agilent 1200 HPLC

The Agilent 1200 is the most comprehensive and reliable LC available. The Agilent 1200 Series features improvements in design, manufacturing, software and associated services to provide measurable gains in performance, ease of use and uptime.

Our Agilent 1200 HPLC system is composed of quaternary Pump (Flow range: 0.001–10 mL/min*, for gradient analysis), thermostatted Column Compartment (10 °C below ambient to 80 °C), high Performance Autosampler SL (0.1 μL–100 μL for vials and well-plates) and manual injector, fraction Collector (Flow rate: up to 10 mL/min), diode Array Detector and chromatographic data systems.

Services provided by the instrument includes:

  1. Protein/peptide separation, purification and preparation;
  2. Small molecules separation, purification and preparation.

Ettan DALT II Electrophoresis Unit

The Ettan™ DALT II System is designed to handle multiple large second-dimension gels in a simple, efficient, and reproducible manner. It has the following features:

  • High throughput (up to 12 gels simultaneously).
  • Highest resolution (26 × 20 cm gel size).
  • Highest possible protein capacity.
  • Integrated system with very efficient Peltier temperature control.
  • 4 h to overnight electrophoresis.
  • Best for 18 cm and 24 cm IPG strips.
  • Low buffer volume: 10 l for 12 gels.

Services provided by the instrument includes:

  1. 1D SDS PAGE
  2. 2D PAGE
  3. 2D-DIGE

Agilent 3100 OFFGEL Fractionator

The Agilent 3100 OFFGEL Fractionator uses a novel isoelectric focusing technique to achieve excellent pI-based fractionation with high reproducibility. The resulting fractions are in solution, making recovery for LC/MS analysis much easier than with traditional gels. The 3100 features a new, easy-to-use Web-based user interface.

Services provided by the instrument includes:

  • Protein/peptide fractionation using liquid phase isoelectric focusing (IEF)

Labconco Freeze Dry / Shell Freeze System

The Labconco FreeZone® freeze-dryer is equipped with mechanically refrigerated coil, automatic one-button start-up to initiate condenser cool down and vacuum pull down, LCD that displays vacuum in millibars and condenser temperature in °C.

Services provided by the instrument includes:

  • Sample concentration by removing solvent with lyophilization


  1. 1D and 2D Gel Electrophoresis
    • 1D SDS PAGE
    • 2D PAGE
    • 2D-DIGE
  2. Protein identification by High Resolution mass spectrometry
  3. Comparative proteomics using labeled or label-free methods
    • SILAC
    • TMT
    • iTRAQ
    • Label-free (spectrum counting)
  4. Protein/peptide/small molecules quantification using PRM or SRM/MRM MS
  5. Protein quantification using high throughput ELISA/LUMINEX assays
  6. Small molecules characterization
  7. Metabolomics
  8. HPLC separation/fractionation
  9. Sample preparation
    • In-gel digestion
    • In-solution digestion
    • Protein/peptide fractionation using liquid phase IEF

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