Mass Spectrometry & Proteomics

ANNOUNCEMENT: The Proteomics Core Facility has updated the pricing for each NEW proteomics project beginning October 7, 2022. Projects that have already received an estimated quote will be completed according to the estimated quote price. Pricing is project dependent and will fluctuate based on sample size and experimental design. The Proteomics Core Facility will provide a cost estimate quote that reflects individual experimental design and sample size prior to sample submission. Please see the Services page to review the new estimated core pricing before sample submission.

A project consultation meeting with a proteomics facility core staff member is REQUIRED FOR EACH NEW PROJECT. Please contact the proteomics core facility staff to arrange a consultation meeting prior to sample submission.

Link to Sample Submission Form

 

Mission

The mission of the Proteomics Core Facility at the University of Utah is to provide expert mass spectrometry services and consultation for the University of Utah and Huntsman Cancer Institute (HCI) research communities, as well as to public and private institutions within the state of Utah.

This core provides and operates as a fee-for-service resource. Please see the services tab for itemized price listings.

Goals

The goals of the facility are to provide access to high performance mass spectrometry resources and the latest proteomics technology for researchers in addition to supporting an efficient research and educational environment for sharing ideas, experiences, and knowledge of proteomics.

The Proteomics Core Facility enables investigators to utilize an array of state-of-the-art mass spectrometry-based techniques for proteomics experiments, ranging from protein identification, post-translational modification characterizations and protein interactions to large-scale quantitative proteomic analyses using data-independent acquisition and tandem mass tag labeling. The staff is available to users for consultation on experimental design and proteomics methods, assisting with data interpretation, manuscript preparation and grant submission.

The facility continues to provide mass spectrometry support for a broad range of research and sample types, such as polymers, natural products, small synthetic molecules, and large intact proteins and nucleic acids. Our goal is to provide the highest quality mass spectrometry analyses for protein and other biomolecule investigations.

Protocols

Gel Stain Protocol

In-gel protein digestion protocol

Proteomics mass spectrometry analysis was performed at the Mass Spectrometry and Proteomics Core Facility at the University of Utah. Mass spectrometry equipment was obtained through a Shared Instrumentation Grant  1 S10 OD018210 01A1.

Proteomics Services

Please contact the Proteomics Core Facility for an Accurate Price Quote for Each Project

The primary focus of the Proteomics Core Facility is to support proteomics research in both academic and clinical settings. The facility also continues to provide general mass spectrometry services for the academic community, as well as biotech companies in the regional area. A broad range of research applications and sample types are accepted for analysis (e.g. proteins, natural products, synthetic peptides, small molecules, polymers, PCR products, nucleic acids, and other biomolecules).

A new project consultation meeting with a proteomics facility core staff member is required for each new project. Please contact the proteomics core facility staff to arrange a consultation meeting prior to sample submission.

Common reagents necessary to perform each proteomics experiment (e.g., reducing and alkylating agents, trypsin, Ziptips, IMAC enrichment kits, tandem mass tags and LC/MS grade solvents) are provided by the Proteomics Core Facility and the costs are already built into the estimated service fee. All project costs will fluctuate based on sample size and experimental design. We will provide a cost estimate following a project consultation with a staff member prior to sample submission.

Please consult the FAQs page or contact a staff member if you have any questions about our services.

Refer to the Guidelines & Protocols page for recommendations and information prior to preparing and submitting protein gel bands or protein samples for analysis.

Current Services

Intact Mass Analysis of proteins or small biomolecules

Electrospray Ionization (ESI) Direct Sample Injection

Protein Identification

Targeted and untargeted protein identification

Identification of protein-protein interacting partners

Peptide enrichment and identification of post-translational modifications (PTMs)

High pH Fractionation: Increases protein identification from LC-MS/MS analysis through orthogonal peptide fractionation of complex peptide samples

Quantitative Proteomics

Data-independent acquisition (DIA) label-free

Tandem Mass Tags (TMT) labeling

Stable Isotope Labeling by Amino acids in Cell culture (SILAC)

University of Utah Cost Estimates/ sample

*Data analysis cost is estimated at $100.00/hour and will fluctuate based on sample size and experimental design

*Protein Quantification (DIA) Total Fee/sample includes 1 sample and sample library generation. Library generation for protein quantification via DIA is a flat rate regardless of sample size

*The Proteomics Core Facility will provide a cost estimate quote that reflects individual experimental design and sample size prior to sample submission

The Proteomics Core Facility is equipped with standard laboratory equipment (freezers, centrifuges, analytical balances, etc.) a sterile AirClean4000 workstation for sample preparation, a Savant SpeedVac concentrator, and several high-performance mass spectrometers.

Instrumentation

Q Exactive HF Hybrid Quadrupole-Orbitrap Mass Spectrometer

The Q Exactive HF Hybrid Quadrupole-Orbitrap Mass Spectrometer (QE-HF) (ThermoFisher Scientific) is coupled to a Dionex Ultimate3000 RSLCnano System and nano-electrospray ionization for ultimate sensitivity and chromatographic performance.

Especially well-suited for proteomics applications, the QE-HF instrument provides high sensitivity (sub-femtomole), igh resolution up to 240,000, and high mass accuracy (<3 ppm), affording greater sequence information and high-confidence protein identifications. The QE-HF is well equipped for protein identification, mapping protein post-translational modifications and protein quantification via data-independent acquisition or tandem-mass tag labeling.

 

Maxis II ETD

The Maxis II ETD is paired with an Ekspert nanoLC 400 liquid chromatography system and electrospray ionization source. The Maxis is optimal for providing high mass accuracy for intact protein and biomolecule analysis.

 

timsTOF Pro 2 (Coming Soon!)

Trapped ion mobility spectrometry (TIMS) is a gas phase separation technique that resolves sample complexity through an added dimension of separation. Time of flight (TOF) is a mass analyzer that uses an electric field to accelerate generated ions through the same electrical potential, and ten measures the time each ion takes to reach the detector.

The combination of these two powerful analytical techniques allows for increased protein identifiation, high data acquisition speed and robust performance for comprehensive proteome coverage. The timsTOF Pro 2 is well equipped for protein identification, mapping protein post-translational modifications and protein quantification via data-independent acquisition or tandem-mass tag labeling.

Hours of Operation

Monday-Friday 9am-5pm

Location

Mass Spectrometry and Proteomics Core

15 N Medical Drive East, Room A306

University of Utah

Salt Lake City, Utah 84112-5650

Staff

James Cox, Ph.D. , HSC Cores  Director
jcox@cores.utah.edu
Phone: 801-587-7779
Fax: 801-585-6362

Allison Manuel, Ph.D.
allison.manuel@cores.utah.edu

801-581-5018

jamescox1971@hotmail.com

Sandra Osburn, Ph.D.
sandra.osburn@cores.utah.edu
801-581-5018