Non-electrophoretic differential detergent fractionation proteomics using frozen whole organs

作者：van den Berg Bart H J^*; Harris Tya; McCarthy Fiona M; Lamont Susan J; Burgess Shane C

来源：Rapid Communications in Mass Spectrometry, 2007, 21(23): 3905-3909.

DOI：10.1002/rcm.3287

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.

• 出版日期2007