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DF/HCC Cancer Proteomics Center

Director: Libermann, Towia, Ph.D.

Location: Beth Israel Deaconess Medical Center, Research North Building Room 380C, 99 Brookline Ave., Boston, MA 02115

Core Summary:

The Core provides all of the tools of modern functional proteomics. Equipped with State-of-the-Art technologies for proteomics; protein profiling, protein identification, protein and peptide fractionation, and quantization. Personalized experimental design consultation, comprehensive individualized bioinformatics support.

The mission of the DF/HCC Cancer Proteomics Core is to develop a comprehensive and interdisciplinary proteomics core for High Sensitivity, High Resolution and High Throughput Proteomics with particular emphasis on in depth proteomic consultation, referral to the optimal proteomics facility and a strong focus on clinical sample analysis. The core will combine consultation, service and education into a comprehensive, translationally and clinically oriented proteomics core.

  • Beth Israel Deaconess Medical Center
  • Dana-Farber/Harvard Cancer Center
Personnel/Contact Information:

Director: Libermann, Towia, Ph.D.
Phone: (617) 667-0760

Member: Zerbini, Luiz
Role: Research Proteomics contact
Phone: (617) 667-0760

Member: Asara, John, Ph.D.
Role: Assistant Professor of Medicine
Phone: (617) 667-6182, (617) 735-2651

Facilities and Equipment:

Location of Core: Beth Israel Deaconess Medical Center, Research North Building Room 380C, 99 Brookline Ave., Boston, MA 02115

Major Equipment:

  • ABI QSTAR Pulsar Hybrid mass spectrometer
  • Amersham ASP automatic hybridization station
  • Amersham Lucidea arrayer
  • Beckman Coulter Biomek FX laboratory automation workstation
  • Beckman Coulter PF2D LC Fractionation System
  • BioMicro Systems MAUI automatic hybridization station
  • Ciphergen SELDI time-of-flight secondary ion mass spectrometer
  • Dionex Nano LC dual gradient capillary separation system
  • High-performance ABI SCIEX 4700 MALDI-TOF/TOF mass spectrometer
  • Perkin Elmer ScanArray Express HT Laser Scanner
  • Thermo Finnigan LCQ Deca Ion Trap Mass Spectrometer
  • Bioinformatics analysis service


    * Personalized consulting
    * Customized data analysis and interpretation
    * Web-based bioinformatics tools
    * Comprehensive and innovative Bioinformatics and visualization tools
    * Comprehensive annotation tools
    * Identification of Global Relationships
    * Incorporation of Biological Knowledge
    * Pathway Analysis
    * Publication ready figures
    * The Bioinformatics Core is also responsible for software support and development

  • Protein and peptide modifications identification service


    * phosphorylation sites
    * protein modifications such as acetylation, methylation, and ubiqitination
    * By µLC/MS/MS
    * coomassie stain only, purified proteins

  • Protein identification by µLC/MS/MS

    Includes coomassie and silver stained gel bands.

  • Protein profiling of complex biological samples

    E.g. serum, urine, tissue, and cell extracts.


    *Profiling by µLC/MS
    *Multidimensional protein fractionation by µLC

  • Relative quantitation by µLC/MS/MS


    * SILAC - stable isotope labeling of amino acids in cell culture which is a biosynthetic approach
    * GIST - global internal standard technology, a post digestion peptide level labeling technique.
    * ICAT - isotope coded affinity tag -based protein profiling
    * ITRAQ - isobaric peptide tagging system that enables you to label all primary amines, regardless of peptide class

Departmental Web Link(s):

Last updated: 2012-07-11T09:44:44.854-05:00