Non-electrophoretic differential detergent fractionation proteomics using frozen whole organs

Bart H.J. Van Den Berg, Tya Harris, Fiona M. McCarthy, Susan J. Lamont, Shane C. Burgess

Research output: Contribution to journalArticle

6 Scopus citations

Abstract

Non-electrophoretic methods based on two-dimensional liquid chromatography followed directly by tandem mass spectrometry (2D-LC/MS2) have become the preferred method for high-throughput expression proteomics and are widely applied to fresh tissues. Pre-fractionation techniques are also used in combination with 2D-LC/MS2 to both increase the proteome size and to assign cellular locations. Data from such experiments have become central to systems biology analyses. Here we apply a differential detergent (pre)fractionation (DDF) followed by 2D-LC/MS2 to frozen archival tissues. Our results show that by using frozen archival tissues, we do not lose proteome coverage or the ability to assign proteins to cellular compartments. In addition, we were able to assign 'biological process' Gene Ontology (GO) annotations, which will facilitate systems biological modeling of our proteomics data.

Original languageEnglish (US)
Pages (from-to)3905-3909
Number of pages5
JournalRapid Communications in Mass Spectrometry
Volume21
Issue number23
DOIs
StatePublished - Dec 12 2007
Externally publishedYes

ASJC Scopus subject areas

  • Analytical Chemistry
  • Spectroscopy
  • Organic Chemistry

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