Proteomic investigation of natural killer cell microsomes using gas-phase fractionation by mass spectrometry

Josip Blonder, Maria Cecilia Rodriguez-Galan, David A. Lucas, Howard A. Young, Haleem J. Issaq, Timothy D. Veenstra, Thomas P. Conrads*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

25 Scopus citations


We have explored the utility of gas-phase fractionation by mass spectrometry (MS) in the mass-to-charge (m/z) dimension (GPFm/z) for increasing the effective number of protein identifications in cases where sample quantity limits the use of multi-dimensional chromatographic fractionation. A peptide digestate from proteins isolated from the membrane fraction of natural killer (NK) cells was analyzed by microcapillary reversed-phase liquid chromatography coupled online to an ion-trap (IT) mass spectrometer. Performing GPFm/z using eight narrow precursor ion scan m/z ranges enabled the identification of 340 NK cell proteins from 12 μg of digestate, representing more than a fivefold increase in the number of proteins identified as compared to the same experiment employing a standard precursor ion survey scan m/z range (i.e., m/z 400-2000). The results show that GPFm/z represents an effective technique for increasing protein identifications in global proteomic investigations especially when sample quantity is limited.

Original languageEnglish
Pages (from-to)87-95
Number of pages9
JournalBiochimica et Biophysica Acta - Proteins and Proteomics
Issue number1
StatePublished - 8 Apr 2004
Externally publishedYes


  • 2D PAGE
  • Gas-phase fractionation
  • MS
  • MS/MS
  • Mass spectrometry
  • Membrane proteomic
  • Microcapillary liquid chromatography
  • Microsome
  • Natural killer cell
  • Tandem mass spectrometry
  • Two-dimensional polyacrylamide gel electrophoresis
  • m/z
  • μLC


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