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University of Wisconsin–Madison

Mass Spectrometry / Proteomics Facility

We are open for business! We are happy to be back. During Phase 1, we will be operating at reduced capacity. We will make every effort to keep turnaround times short as we understand there are many projects that have been waiting. We appreciate your patience and business. The UW Biotechnology Center is following University guidelines regarding COVID-19.

New Lipidomics Services!

The Mass Spectrometry Core Facility has established the Advanced Lipidomics Facility (ALF) through a collaboration with Dr. Judith Simcox and Dr. Dudley Lamming as a part of the UW-Madison Comprehensive Diabetes Center.  This platform is based on a state-of-the-art Agilent 6546 QTOF mass spectrometer coupled with an Agilent 1290 Infinity II UHPLC system.  The methods have been tested on several tissue types including plasma, intestine, skin, neuron, pancreas, liver, and adipose tissue.  

Samples are submitted as frozen tissues, homogenized, extracted, and prepared for LC/MS/MS analysis.  Data are collected in both positive and negative ion modes using C18-based chromatography.  Data analysis is performed by the Mass Spectrometry Core Facility, with raw and processed outputs available for additional data analysis.

Lipidomics pilot experiment grants are available!  Click here to learn more.


Learn about the Mass Spectrometry Core Facility and our new lipidomics platform
in this presentation by Facility Director Greg Barrett-Wilt.

Bio-Tech Talks

The University of Wisconsin Biotechnology Center Mass Spectrometry Core Facility has several mass spectrometers for the analysis of biomolecules, including proteins, peptides, oligonucleotides, oligosaccharides and other small organic and inorganic molecules. In addition to measuring the molecular weights of compounds, many of these instruments can perform MS/MS fragmentation data, so that the structure of a selected compound can be deduced from its fragments. This is particularly useful for peptide sequencing and post-translational modification mapping. The electrospray ionization (ESI) instruments are equipped with HPLC systems which can be used with reversed phase (RP) or hydrophilic-interaction (HILIC) chromatographies to better characterize complex mixtures by  LC/MS and LC/MS/MS.

LC/MS/MS is extremely useful for quantitation of known compounds and for the rapid screening of mixtures for profiling and to identify components of interest. We also perform proteolytic digestions of proteins, which can be analyzed by HPLC, MS, LC/MS and LC/MS/MS for peptide mapping,  peptide sequencing, and quantification.

The UWBC Mass Spectrometry Core Facility accepts samples from all Schools, Colleges, and Departments on the UW-Madison campus, across the University of Wisconsin System, academic institutions around the country, and commercial/industry clients around the world.  Let us know how we can help you!