Qualitative and quantitative analyses of proteins and proteomes.

Tailored proteomic solutions

Welcome to the mass spectrometry-based proteomics facility at Uppsala University. We are located at the Department of Chemistry - BMC, Analytical Chemistry. We offer tailored proteomic solutions for projects from both academia and industry.

A flow chart showing all the steps in the analysis.


  • Qualitative proteomics. Identification of proteins in complex biological samples.
  • Quantitative proteomics. Label-free and labeling techniques.
  • Body fluid proteomics. E.g. cerebrospinal fluid and plasma.
  • Characterization of post-translational modifications. e.g. protein phosphorylation and glycosylation.
  • Proteomics of samples from non-human species. E.g. cats, dogs, plants, bacteria and parasites.
  • Protein identification. From solution and gel spots/bands.
  • Analysis of proteins from tissue samples stored in biobanks (FFPE/OCT storage).
  • Determination of the intact mass of recombinant and native proteins.
  • Immunoprecipitation and identification of target proteins. The facility offers advice on experimental set up for identification of immunoprecipitated and co-immunoprecipitated proteins with MS.
  • In depth characterization of native and recombinant proteins.
  • Protein extraction. Selective extraction of proteins from cells and tissues.
  • Protein separation. 1-D SDS-PAGE Ion chromatography fractionation (SCX, ERLIC)
  • Training services. We provide courses and workshops.


  • LTQ Orbitrap Velos Pro ETD MS. (Thermo Scientific). 
  • QExactive Plus Orbitrap MS. (Thermo Scientific)
  • MALDI TOF/TOF MS. (Bruker Daltonics), 2 instruments.
  • Easy nanoLC 1000 and Easy nanoLC II (Thermo Scientific)
  • 1260 Infinity LC (Agilent Technologies)


  • Characterization of truncated and modified proteins, elucidation of enzymatic cleavage sites.
  • In-depth cerebrospinal fluid proteome analyses and determination of biomarkers for various disease states.
  • Simultaneous extraction of membrane bound and cytosolic proteins from cells and tissues, followed by MS-analysis.
  • Comprehensive characterization of phosphoproteins and phosphoproteomes.
  • Population-based Omics: Correlation of genomic data to MS-based proteomics results.



Using the facility

To use the mass spectrometry-based proteomics facility, contact Ganna by e-mail or telephone and book a time for a start-up meeting: 

Ganna Shevchenko
018-471 3686

Staff at the facility