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UAMS Proteomics Core (proteomics@uams.edu)

Overview of Services

The UAMS Proteomics Core provides a full range of services required for protein characterization by mass spectrometry, including protein identification, mapping of post-translational modifications, global proteomics, and quantitative comparison of proteins in biological samples. Please contact core personnel at proteomics@uams.edu to discuss how the core can support your research.

 

 

Proteomics Core Equipment

 

Orbitrap Fusion Mass Spectrometers

The Thermo Orbitrap Eclipse system is the latest generation of the state-of-the-art Orbitrap mass spectrometry technology installed at UAMS in September 2019. The Proteomics Core also operates an Orbitrap Lumos and two Orbitrap Fusion Tribrid instruments. The Orbitrap Fusion systems combine a quadrupole mass filter with Orbitrap and linear ion trap mass analyzers in a novel configuration that maximizes ion transfer efficiency, allowing flexible combinations of different fragmentation techniques, scanning modes, and mass analyzers. The quadrupole mass filter allows precursor ion selection, enabling parallel use of the mass analyzers and synchronous precursor selection for MS3 analysis. An ion-routing multipole serves as a higher-energy collisional dissociation (HCD) cell and also transfers ions efficiently between the Orbitrap and linear ion trap mass analyzers, allowing use of either mass analyzer in combination with any ion fragmentation technique. The ultra-high-field Orbitrap mass analyzer has a resolving power of up to 500,000 FWHM and 45 Hz scan rate. A linear ion trap performs collision-induced dissociation (CID) and electron-transfer dissociation (ETD).

 

Nanoflow Ultra Performance Liquid Chromatography

Each of the mass spectrometers described above is interfaced with a Waters nanoAcquity or Thermo Easy-nLC 1200 nanoflow UPLC system, including a binary solvent manager and a sample manager. Precise chromatography is achieved by these systems through low detector cell volume, minimized tubing volumes and specialized fittings. The binary solvent manager and injector can sustain pressures up to 15,000 psi and can generate high-pressure gradients at nanoliter flow rates with minimal delay. The sample manager can accommodate two 96-well plates in a microtiter plate format.

 

UltiMate 3000 Binary Analytical Liquid Chromatography System

The Thermo UltiMate 3000 System is capable of precise and efficient offline fractionation of complex protein digests. This system is used in the Proteomics Core workflow to fractionate peptides at basic pH in order to complement the acidic pH separation performed during liquid chromatography-mass spectrometry/mass spectrometry (LC-MS/MS) analysis. The UltiMate 3000 can sustain pressures as high as 9000 psi and flow rates as low as 50 nL/min. The system includes an analytical autosampler and fraction collector to allow efficient processing of large numbers of samples, as well as a UV detector to monitor peptide elution and prevent cross-contamination.

 

Computers and Software

The core maintains eight Dell Precision workstations, each with solid state hard drives and 128 GB RAM, supporting a full range of data analysis software, including an in-house Mascot Server (Matrix Science), several MaxQuant (Max Planck Institute) installations, Scaffold Q+S (Proteome Software), and PEAKS Studio (Bioinformatics Solutions). The core has 150 TB of dedicated data storage space to maintain secure backups of all data files.

 

 

Proteomics Core Services

 

The UAMS Proteomics Core offers comprehensive support from sample preparation through data analysis at reasonable cost with rapid turnaround. Please contact core personnel before starting a new experiment to ensure that sample prep is MS compatible. Workflows can be adapted to fit the requirements of specific projects and budgets. Turnaround times are estimates and may vary for specific projects.

All fees below include preliminary data analysis, i.e. protein identification by database search with results provided in Scaffold files. A free viewer version of Scaffold is available (http://www.proteomesoftware.com/products/scaffold/download/).

UPDATES COMING SOON

 

Shipping Address

UAMS Proteomics Core

WP Rockefeller Cancer Institute, Rm 9110

400 Jack Stephens Dr

Little Rock, AR  72205

 

Contacts

Name Role Phone Email Location
Alan Tackett
Director, IDeA National Resource for Proteomics
 
(501) 686-8152
 
ajtackett@uams.edu
 
Biomed I, B405E
 
Rick Edmondson
Co-Director, UAMS Proteomics Core
 
(501) 766-3665
 
rdedmondson@uams.edu
 
WPRCI, 9121
 
Sam Mackintosh
Co-Director, UAMS Proteomics Core
 
(501) 526-6165
 
sgmackintosh@uams.edu
 
WPRCI, 9111
 
Lisa Orr
Research Assistant
 
(501) 686-5954
 
orrlisam@uams.edu
 
Biomed I, B406
 
Renny Lan
Data Analyst
 
(501) 526-5238
 
slan@uams.edu
 
WPRCI, 9110