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Proteomics Core

Proteomics Core is the central resource for mass spectrometry based proteomics within the NHLBI. The Core staff help collaborators design proteomics experiments in a way that are compatible with mass spectrometry and to modify protocols if needed to ensure they will provide high quality data. An important aspect of the Core’s mission is to teach users new methods, techniques and instruments. The Core also continually innovates on existing technologies.

Our workflows for relative protein quantitation are based on DIGE, label-free and iTRAQ approaches. We can also help investigators identify and quantify protein posttranslational modifications, including phosphorylation, nitrosylation, acetylation, ubiquitination, etc. We provide training in proper sample preparation and lead the researchers through mass spectrometric analysis to data searching and interpretation. Users have access to a variety of proteomics software platforms (Mascot, Sequest, Proteome Discoverer, Scaffold, Protein Pilot) for re-searching the data or viewing the results.

In addition to helping the NHLBI investigators, we develop new approaches for characterization of posttranslational modifications and absolute protein quantitation.

The NHLBI Proteomics Core was a recipient of the 2012 NHLBI Orloff Award for outstanding research support.
Recent studies and method development include:

  • Acetylation on lysine (developing workflows for identification and occupancy measurements)
  • Nitrosylation on cysteine (developing workflows for identification and occupancy measurements)
  • Ubiquitination and SUMOylation (workflows for identification and quantitation)
  • Development of ‘mito-panel’ – using targeted analysis on Velos to follow specific mitochondrial proteins
  • Depletion of the most abundant serum proteins to study the protein differences in patients’ samples
  • Absolute protein quantitation using SRM on Velos instruments
  • Development of iTRAQ quantitation software (Quari) and measurement of and correction for isolation purity in iTRAQ
  • Separation of peptides and phosphopeptide enrichment using IEF or OFF-Gel System


Mass spectrometers
Thermo Orbitrap Velos Elite 1
Thermo Orbitrap Velos Elite 2
Thermo Orbitrap Excel with ETD
ABI 4000 Qtrap

2D-gel setup
Typhoon Scanner
Ettan Spot Handling Workstation
Ettan Spot Picker
Perkin Elmer Liquid Handling Station
Progenesis software programs

Supporting instruments
Three off-line Agilent HPLC for SCX/HILIC
OFFGEL Instrument for IEF separation of peptides and proteins
GelFree Instrument for in-solution separation of proteins

Data analysis
Workstations with Proteome Discoverer, Scaffold, Protein Pilot, Mascot Daemon, ProteoIQ

Core Staff

The Core staff members are experts in proteomics technologies. They will be happy to provide advice and training on equipment as necessary. If you would like to initiate a new project, please contact the Core Director Marjan Gucek, PhD via email.

Principal Investigator thumbnail image

Marjan Gucek
Core Director
Proteomics Core

P: +1 301 594 1060
F: +1 301 402 2113

Principal Investigator thumbnail image

Angel Aponte
Scientific Support Staff
Proteomics Core

P: +1 301 496 0004

Principal Investigator thumbnail image

Yong Chen
Staff Scientist
Proteomics Core

P: +1 301 594 1187

Principal Investigator thumbnail image

Sajni Patel
Scientific Support Staff
Proteomics Core

P: +1 301 594 1272
F: +1 410 558 8054

Principal Investigator thumbnail image

Stephen Swatkoski
Research Fellow
Proteomics Core

P: +1 301 594 1807

Principal Investigator thumbnail image

Guanghui Wang
Staff Scientist
Proteomics Core

P: +1 301 402 2299
F: +1 301 402 2113

Last Updated: December 14, 2012