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Proteomics & Metabolomics Facility


The PROTEOMICS AND METABOLOMICS SHARED RESOURCE provides high-sensitivity proteomics, metabolomics, and lipidomics analyses using state-of-the-art mass spectrometry instrumentation and methods. Consultation with facility staff prior to sample preparation is recommended to ensure optimal experimental design and methodology.

Proteomics services include: 1) quantitative, in-depth global comparisons of proteomes from cells, secretomes, tissues or biological fluids using label-free quantitation (LFQ) based on integrated ion current, SILAC labeling or TMT isobaric tags; 2) global quantitative comparisons of post-translational modifications such as ubiquitination, acetylation, O-GlcNAcylation or phosphorylation; 3) detailed characterization of individual purified proteins including post-translational modifications; 4) identification of components in protein complexes (e.g., pull-downs, RIME and proximity labeling) including estimation of stoichiometries; 5) cross-linking MS using MS-cleavable crosslinkers for structural analysis of protein complexes; and 6) characterization of intact protein and peptide masses using ESI-MS.

Metabolomics services cover the analysis of polar metabolites and lipids extracted from cells, biological fluids, conditioned media, or tissues. Specific services include: 1) untargeted, global analysis of polar metabolites with relative quantitation; 2) stable isotope tracer analysis (flux analysis) of polar metabolites; 3) untargeted, global analysis of lipids with relative quantitation; 4) targeted profiling of free fatty acids, total fatty acids, and eicosanoids; 5) custom assays for relative or absolute quantification of drugs and other small molecules.

Through inter-institutional agreements, members of the Fox Chase Cancer Center at Temple University and the Kimmel Cancer Center at Thomas Jefferson University have access to Wistar Proteomics & Metabolomics at the same rates as Wistar Cancer Center members.



  • In-gel protease digestion using Colloidal Coomassie or MS-compatible silver stained gels
  • In-solution protease digestion
  • LC-MS/MS for protein identification
  • High resolution accurate mass ESI-MS analysis of small intact proteins
  • MALDI-MS protein and peptide analysis
  • 1D SDS-PAGE sample preparation and fractionation
  • Reverse phase microbore HPLC peptide mapping
  • Targeted relative quantitation of approximately 200 validated metabolites


  • Characterize PTMs (purified proteins or global profiling)
  • Global label-free quantitative analysis of proteomes using Gel/LC-MS/MS
  • Quantitative comparisons using SILAC or isobaric tags (TMT)
  • High pH protein fractionation for LC/LC-MS/MS
  • Analysis of protein-protein crosslinks
  • Targeted quantitation of selected proteins using PRM-MS of prototypic peptides
  • 13C stable isotope tracer analysis of cell metabolism using LC-MS.
  • Untargeted polar metabolite quantitative comparisons
  • Untargeted lipidomics for quantitative profiling of global lipids and acylceramides
  • Targeted quantitation of free fatty acids, total fatty acids, and eicosanoids

Click here for gel shipping instructions and SDS-gel guidelines.

Equipment & Features

  • Thermo Orbitrap Astral mass spectrometer with Vanquish Neo UHPLC system
  • Thermo Orbitrap Eclipse Tribrid mass spectrometer with Ultimate 3000 RSLCnano UPLC
  • Thermo Q Exactive Plus mass spectrometer with Vanquish UHPLC system
  • Thermo Q Exactive HF-X mass spectrometer with Vanquish UHPLC system
  • Agilent 1100 microbore HPLC with UV detector and fraction collector

Multiple PC servers, archived data storage and comprehensive software for protein/peptide, polar metabolite, and lipid data analysis.


For pricing information, visit iLab or contact the managing director.

This facility is supported in part by a Cancer Center Support Grant (CCSG) awarded by the National Cancer Institute (NCI) to the Ellen and Ronald Caplan Cancer Center.

Click here for information on how to acknowledge our Shared Resources in your publications and grants.

See recording of facility presentation.


National Institutes of Health (NIH) has introduced new standards for grant applications to address an increasing trend of reports of failure to replicate important basic/preclinical studies.

Contact Us

The Wistar Institute
Proteomics and Metabolomics Facility
Rooms 252 and 264
3601 Spruce St
Philadelphia, PA 19104, (215) 898-3830, (215) 898-2384

Directors and Staff

Hsin-Yao Tang, Ph.D.
Co-Scientific Director

Aaron R. Goldman, Ph.D.
Co-Scientific Director

Wujuan Zhang, Ph.D.
Managing Director of Metabolomics

Thomas Beer and Nicole Gorman
Wistar Research Assistants

Facility Hours

9:00 am – 5:00 pm