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J Biotechnol. 2006 Dec 1;126(4):582-6. Epub 2006 Jul 31.

Pre-fractionation of archival frozen tumours for proteomics applications.

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Department of Molecular Medicine and Surgery, Section of Medical Genetics, Karolinska Institutet, Karolinska University Hospital-Solna, CMM L8:01, SE-171 76 Stockholm, Sweden.


We report a protocol for pre-fractionation of proteins from frozen tumours. Using this protocol two separate protein fractions are extracted: Fraction 1 is enriched for cytosolic and Fraction 2 for nuclear/nuclear membrane proteins. The accuracy and reproducibility of the protocol were demonstrated by Western blot analyses and SELDI-TOF-MS profilings. The resulting protein profiles were similar within the respective groups of Fractions 1 and 2 samples, without differences between freshly prepared tumours or those obtained as frozen tissue from biobanks.

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