Extraction of proteins from formalin-fixed, paraffin-embedded tissue using the qproteome extraction technique and preparation of tryptic peptides for liquid chromatography/mass spectrometry analysis

Current Protocols in Molecular Biology

Volumn , Issue SUPPL. 90, 2010, Pages

  Geoui, Thibault ^a   Urlaub, Henning ^b   Plessmann, Uwe ^b   Porschewski, Peter ^a  

^a QIAGEN GMBH   (Germany)

^b MAX PLANCK INSTITUTE FOR BIOPHYSICAL CHEMISTRY   (Germany)

Author keywords

Formalin fixed tissue; Mass spectrometry; Protein extraction; Proteomics

Indexed keywords

FORMALDEHYDE; PARAFFIN; PEPTIDE; TRYPSIN;

EMBEDDING; FROZEN SECTION; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN ISOLATION; PROTEOMICS; RELIABILITY; REVIEW; TISSUE FIXATION; ANIMAL TISSUE; ARTICLE; CONTROLLED STUDY; EXTRACTION; FORMALIN FIXED PARAFFIN EMBEDDED TISSUE; LIQUID CHROMATOGRAPHY-MASS SPECTROMETRY; PROTEIN DEGRADATION; PROTEIN EXTRACTION; RAT; TISSUES;

ANIMALS; CHROMATOGRAPHY, LIQUID; FIXATIVES; FORMALDEHYDE; HUMANS; MASS SPECTROMETRY; PARAFFIN EMBEDDING; PEPTIDES; PROTEINS; PROTEOME; RATS; TRYPSIN;

RATTUS;

EID: 77950813992     PISSN: 19343639     EISSN: 19343647     Source Type: Journal    
DOI: 10.1002/0471142727.mb1027s90     Document Type: Review

References (12)

1. Ahram, M., Flaig, M.J., Gillespie, J.W., Duray, P.H., Linehan, W.M., Ornstein, D.K., Niu, S., Zhao, Y., Petricoin, E.F. III, and, Emmert-Buck, M.R., 2003. Evaluation of ethanol-fixed, paraffin-embedded tissues for proteomic applications. Proteomics 3: 413 - 421.
2. Becker, K.F., Schott, C., Hipp, S., Metzger, V., Porschewski, P., Beck, R., Nhrig, J., Becker, I., and, Hfler, H., 2007. Quantitative protein analysis from formalin-fixed tissues: Implications for translational clinical research and nanoscale molecular diagnosis. J. Pathol. 211: 370 - 378.
3. Becker, K.F., Schott, C., Becker, I., and, Hfler, H., 2008. Guided protein extraction from formalin-fixed tissues for quantitative multiplex analysis avoids detrimental effects of histological stains. Proteomics Clin. Appl. 2: 737 - 743.
4. Carson, F.L., and, Hladik, C., 2009. Histotechnology: A Self-Instructional Text, 3rd ed. ASCP Press, Chicago.
5. de Godoy, L.M., Olsen, J.V., Cox, J., Nielsen, M.L., Hubner, N.C., Frhlich, F., Walther, T.C., and, Mann, M., 2008. Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast. Nature 455: 1251 - 1254.
6. Guo, T., Wang, W., Rudnick, P.A., Song, T., Li, J., Zhuang, Z., Weil, R.J., DeVoe, D.L., Lee, C.S., and, Balgley, B.M., 2007. Proteome analysis of microdissected formalin-fixed and paraffin-embedded tissue specimens. J. Histochem. Cytochem. 55: 763 - 772.
7. Hewitt, S.M., Lewis, F.A., Cao, Y., Conrad, R.C., Cronin, M., Danenberg, K.D., Goralski, T.J., Langmore, J.P., Raja, R.G., Williams, P.M., Palma, J.F., and, Warrington, J.A., 2008 Tissue handling and specimen preparation in surgical pathology: Issues concerning the recovery of nucleic acids from formalin-fixed, paraffin-embedded tissue. Arch. Pathol. Lab. Med. 132: 1929 - 1935.
8. Masuda, J., Maynard, D.M., Nishimura, M., Ueda, T., Kowalak, J.A., and, Markey, S.P., 2005. Fully automated micro- and nanoscale one- or two-dimensional high-performance liquid chromatography system for liquid chromatography-mass spectrometry compatible with non-volatile salts for ion exchange chromatography. J. Chromatogr. 21: 57 - 69.
9. Prophet, E.B., 1992. Fixation. In Laboratory Methods in Histotechnology, 1st ed. (, E.B. Prophet, B. Mills, J.B. Arrington, and, L.H. Sobin, eds.) pp. 25 - 29. American Registry of Pathology, Washington, D.C.
10. Puchtler, H., and, Meloan, S.N., 1985. On the chemistry of formaldehyde fixation and its effects on immunohistochemical reactions. Histochemistry 82: 201 - 204.
11. Werner, M., Chott, A., Fabiano, A., and, Battifora, H., 2000. Effect of formalin tissue fixation and processing on immunohistochemistry. Am. J. Surg. Pathol. 24: 1016 - 1019.
12. Wright, M.E., Han, D.K., and, Aebersold, R., 2005. Mass spectrometry-based expression profiling of clinical prostate cancer. Mol. Cell. Proteomics 4: 545 - 554.