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Volumn 9, Issue 9, 2010, Pages 4710-4720

Formalin-fixed paraffin-embedded (FFPE) proteome analysis using gel-free and gel-based proteomics

Author keywords

cross linking; formalin fixed paraffin embedded (FFPE); gel based; gel free; peptide modification; protein extraction; proteomics

Indexed keywords

ACTIN; ALBUMIN; HEMOGLOBIN ALPHA CHAIN; HEMOGLOBIN BETA CHAIN; KERATIN TYPE II; MYOGLOBIN; MYOSIN LIGHT CHAIN 2;

EID: 77956327955     PISSN: 15353893     EISSN: 15353907     Source Type: Journal    
DOI: 10.1021/pr1004168     Document Type: Article
Times cited : (84)

References (34)
  • 1
    • 42149126010 scopus 로고    scopus 로고
    • Molecular information obtained from radiobiological tissue archives: Achievements of the past and visions of the future
    • Tapio, S.; Atkinson, M. J. Molecular information obtained from radiobiological tissue archives: achievements of the past and visions of the future Radiat Environ Biophys 2008, 47 (2) 183-7
    • (2008) Radiat Environ Biophys , vol.47 , Issue.2 , pp. 183-7
    • Tapio, S.1    Atkinson, M.J.2
  • 2
    • 69749091545 scopus 로고    scopus 로고
    • High-throughput profiling of formalin-fixed paraffin-embedded tissue using parallel electrophoresis and matrix-assisted laser desorption ionization mass spectrometry
    • Aerni, H. R.; Cornett, D. S.; Caprioli, R. M. High-throughput profiling of formalin-fixed paraffin-embedded tissue using parallel electrophoresis and matrix-assisted laser desorption ionization mass spectrometry Anal. Chem. 2009, 81 (17) 7490-5
    • (2009) Anal. Chem. , vol.81 , Issue.17 , pp. 7490-5
    • Aerni, H.R.1    Cornett, D.S.2    Caprioli, R.M.3
  • 3
    • 0023940544 scopus 로고
    • Polyacrylamide gel electrophoresis and immunoblotting of proteins extracted from paraffin-embedded tissue sections
    • Conti, C. J.; Larcher, F.; Chesner, J.; Aldaz, C. M. Polyacrylamide gel electrophoresis and immunoblotting of proteins extracted from paraffin-embedded tissue sections J Histochem Cytochem 1988, 36 (5) 547-50
    • (1988) J Histochem Cytochem , vol.36 , Issue.5 , pp. 547-50
    • Conti, C.J.1    Larcher, F.2    Chesner, J.3    Aldaz, C.M.4
  • 6
    • 12344275841 scopus 로고    scopus 로고
    • Mechanisms of heat-induced antigen retrieval: Analyses in vitro employing SDS-PAGE and immunohistochemistry
    • Yamashita, S.; Okada, Y. Mechanisms of heat-induced antigen retrieval: analyses in vitro employing SDS-PAGE and immunohistochemistry J Histochem Cytochem 2005, 53 (1) 13-21
    • (2005) J Histochem Cytochem , vol.53 , Issue.1 , pp. 13-21
    • Yamashita, S.1    Okada, Y.2
  • 7
    • 33846629961 scopus 로고    scopus 로고
    • Quantitative protein analysis from formalin-fixed tissues: Implications for translational clinical research and nanoscale molecular diagnosis
    • Becker, K. F.; Schott, C.; Hipp, S.; Metzger, V.; Porschewski, P.; Beck, R.; Nahrig, J.; Becker, I.; Hofler, H. Quantitative protein analysis from formalin-fixed tissues: implications for translational clinical research and nanoscale molecular diagnosis J Pathol 2007, 211 (3) 370-8
    • (2007) J Pathol , vol.211 , Issue.3 , pp. 370-8
    • Becker, K.F.1    Schott, C.2    Hipp, S.3    Metzger, V.4    Porschewski, P.5    Beck, R.6    Nahrig, J.7    Becker, I.8    Hofler, H.9
  • 10
    • 56249132978 scopus 로고    scopus 로고
    • Overexpression of heat shock protein 27 in squamous cell carcinoma of the uterine cervix: A proteomic analysis using archival formalin-fixed, paraffin-embedded tissues
    • Ono, A.; Kumai, T.; Koizumi, H.; Nishikawa, H.; Kobayashi, S.; Tadokoro, M. Overexpression of heat shock protein 27 in squamous cell carcinoma of the uterine cervix: a proteomic analysis using archival formalin-fixed, paraffin-embedded tissues Hum Pathol 2009, 40 (1) 41-9
    • (2009) Hum Pathol , vol.40 , Issue.1 , pp. 41-9
    • Ono, A.1    Kumai, T.2    Koizumi, H.3    Nishikawa, H.4    Kobayashi, S.5    Tadokoro, M.6
  • 11
    • 34447566048 scopus 로고    scopus 로고
    • 'Tissue surrogates' as a model for archival formalin-fixed paraffin-embedded tissues
    • Fowler, C. B.; Cunningham, R. E.; O'Leary, T. J.; Mason, J. T. 'Tissue surrogates' as a model for archival formalin-fixed paraffin-embedded tissues Lab Invest 2007, 87 (8) 836-46
    • (2007) Lab Invest , vol.87 , Issue.8 , pp. 836-46
    • Fowler, C.B.1    Cunningham, R.E.2    O'leary, T.J.3    Mason, J.T.4
  • 12
    • 33646698472 scopus 로고    scopus 로고
    • Protein extraction from formalin-fixed, paraffin-embedded tissue sections: Quality evaluation by mass spectrometry
    • Shi, S. R.; Liu, C.; Balgley, B. M.; Lee, C.; Taylor, C. R. Protein extraction from formalin-fixed, paraffin-embedded tissue sections: quality evaluation by mass spectrometry J Histochem Cytochem 2006, 54 (6) 739-43
    • (2006) J Histochem Cytochem , vol.54 , Issue.6 , pp. 739-43
    • Shi, S.R.1    Liu, C.2    Balgley, B.M.3    Lee, C.4    Taylor, C.R.5
  • 13
    • 62849124399 scopus 로고    scopus 로고
    • Development and validation of a novel protein extraction methodology for quantitation of protein expression in formalin-fixed paraffin-embedded tissues using western blotting
    • Nirmalan, N. J.; Harnden, P.; Selby, P. J.; Banks, R. E. Development and validation of a novel protein extraction methodology for quantitation of protein expression in formalin-fixed paraffin-embedded tissues using western blotting J Pathol 2009, 217 (4) 497-506
    • (2009) J Pathol , vol.217 , Issue.4 , pp. 497-506
    • Nirmalan, N.J.1    Harnden, P.2    Selby, P.J.3    Banks, R.E.4
  • 14
    • 70349136284 scopus 로고    scopus 로고
    • 2-D PAGE and MS analysis of proteins from formalin-fixed, paraffin-embedded tissues
    • Addis, M. F.; Tanca, A.; Pagnozzi, D.; Rocca, S.; Uzzau, S. 2-D PAGE and MS analysis of proteins from formalin-fixed, paraffin-embedded tissues Proteomics 2009, 9 (18) 4329-39
    • (2009) Proteomics , vol.9 , Issue.18 , pp. 4329-39
    • Addis, M.F.1    Tanca, A.2    Pagnozzi, D.3    Rocca, S.4    Uzzau, S.5
  • 17
    • 33846109371 scopus 로고    scopus 로고
    • Direct cancer tissue proteomics: A method to identify candidate cancer biomarkers from formalin-fixed paraffin-embedded archival tissues
    • Hwang, S. I.; Thumar, J.; Lundgren, D. H.; Rezaul, K.; Mayya, V.; Wu, L.; Eng, J.; Wright, M. E.; Han, D. K. Direct cancer tissue proteomics: a method to identify candidate cancer biomarkers from formalin-fixed paraffin-embedded archival tissues Oncogene 2007, 26 (1) 65-76
    • (2007) Oncogene , vol.26 , Issue.1 , pp. 65-76
    • Hwang, S.I.1    Thumar, J.2    Lundgren, D.H.3    Rezaul, K.4    Mayya, V.5    Wu, L.6    Eng, J.7    Wright, M.E.8    Han, D.K.9
  • 18
    • 33947572920 scopus 로고    scopus 로고
    • Development of efficient protein extraction methods for shotgun proteome analysis of formalin-fixed tissues
    • Jiang, X.; Jiang, X.; Feng, S.; Tian, R.; Ye, M.; Zou, H. Development of efficient protein extraction methods for shotgun proteome analysis of formalin-fixed tissues J Proteome Res 2007, 6 (3) 1038-47
    • (2007) J Proteome Res , vol.6 , Issue.3 , pp. 1038-47
    • Jiang, X.1    Jiang, X.2    Feng, S.3    Tian, R.4    Ye, M.5    Zou, H.6
  • 19
    • 61849114172 scopus 로고    scopus 로고
    • Evaluation of archival time on shotgun proteomics of formalin-fixed and paraffin-embedded tissues
    • Balgley, B. M.; Guo, T.; Zhao, K.; Fang, X.; Tavassoli, F. A.; Lee, C. S. Evaluation of archival time on shotgun proteomics of formalin-fixed and paraffin-embedded tissues J Proteome Res 2009, 8 (2) 917-25
    • (2009) J Proteome Res , vol.8 , Issue.2 , pp. 917-25
    • Balgley, B.M.1    Guo, T.2    Zhao, K.3    Fang, X.4    Tavassoli, F.A.5    Lee, C.S.6
  • 20
    • 70249095601 scopus 로고    scopus 로고
    • Protein extraction of formalin-fixed, paraffin-embedded tissue enables robust proteomic profiles by mass spectrometry
    • Scicchitano, M. S.; Dalmas, D. A.; Boyce, R. W.; Thomas, H. C.; Frazier, K. S. Protein extraction of formalin-fixed, paraffin-embedded tissue enables robust proteomic profiles by mass spectrometry J Histochem Cytochem 2009, 57 (9) 849-60
    • (2009) J Histochem Cytochem , vol.57 , Issue.9 , pp. 849-60
    • Scicchitano, M.S.1    Dalmas, D.A.2    Boyce, R.W.3    Thomas, H.C.4    Frazier, K.S.5
  • 21
    • 71049141298 scopus 로고    scopus 로고
    • Equivalence of protein inventories obtained from formalin-fixed paraffin-embedded and frozen tissue in multidimensional liquid chromatography-tandem mass spectrometry shotgun proteomic analysis
    • Sprung, R. W., Jr.; Brock, J. W.; Tanksley, J. P.; Li, M.; Washington, M. K.; Slebos, R. J.; Liebler, D. C. Equivalence of protein inventories obtained from formalin-fixed paraffin-embedded and frozen tissue in multidimensional liquid chromatography-tandem mass spectrometry shotgun proteomic analysis Mol Cell Proteomics 2009, 8 (8) 1988-98
    • (2009) Mol Cell Proteomics , vol.8 , Issue.8 , pp. 1988-98
    • Sprung Jr., R.W.1    Brock, J.W.2    Tanksley, J.P.3    Li, M.4    Washington, M.K.5    Slebos, R.J.6    Liebler, D.C.7
  • 24
    • 0014949207 scopus 로고
    • Cleavage of structural proteins during the assembly of the head of bacteriophage T4
    • Laemmli, U. K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4 Nature 1970, 227 (5259) 680-5
    • (1970) Nature , vol.227 , Issue.5259 , pp. 680-5
    • Laemmli, U.K.1
  • 25
    • 0021988172 scopus 로고
    • Simplified method for silver staining of proteins in polyacrylamide gels and the mechanism of silver staining
    • Heukeshoven, J.; Dernick, R. Simplified method for silver staining of proteins in polyacrylamide gels and the mechanism of silver staining ELECTROPHORESIS 1985, 6 (3) 103-12
    • (1985) Electrophoresis , vol.6 , Issue.3 , pp. 103-12
    • Heukeshoven, J.1    Dernick, R.2
  • 26
    • 0032961627 scopus 로고    scopus 로고
    • Mass spectrometric identification of proteins from silver-stained polyacrylamide gel: A method for the removal of silver ions to enhance sensitivity
    • Gharahdaghi, F.; Weinberg, C. R.; Meagher, D. A.; Imai, B. S.; Mische, S. M. Mass spectrometric identification of proteins from silver-stained polyacrylamide gel: a method for the removal of silver ions to enhance sensitivity Electrophoresis 1999, 20 (3) 601-5
    • (1999) Electrophoresis , vol.20 , Issue.3 , pp. 601-5
    • Gharahdaghi, F.1    Weinberg, C.R.2    Meagher, D.A.3    Imai, B.S.4    Mische, S.M.5
  • 27
    • 0037108887 scopus 로고    scopus 로고
    • Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search
    • Keller, A.; Nesvizhskii, A. I.; Kolker, E.; Aebersold, R. Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search Anal. Chem. 2002, 74 (20) 5383-92
    • (2002) Anal. Chem. , vol.74 , Issue.20 , pp. 5383-92
    • Keller, A.1    Nesvizhskii, A.I.2    Kolker, E.3    Aebersold, R.4
  • 28
    • 1042266254 scopus 로고    scopus 로고
    • Analysis, statistical validation and dissemination of large-scale proteomics datasets generated by tandem MS
    • Nesvizhskii, A. I.; Aebersold, R. Analysis, statistical validation and dissemination of large-scale proteomics datasets generated by tandem MS Drug Discov Today 2004, 9 (4) 173-81
    • (2004) Drug Discov Today , vol.9 , Issue.4 , pp. 173-81
    • Nesvizhskii, A.I.1    Aebersold, R.2
  • 29
    • 0009482260 scopus 로고
    • Electrophoretic transfer of proteins from polyacrylamide gels to nitrocellulose sheets: Procedure and some applications
    • Towbin, H.; Staehelin, T.; Gordon, J. Electrophoretic transfer of proteins from polyacrylamide gels to nitrocellulose sheets: procedure and some applications Proc Natl Acad Sci U S A 1979, 76 (9) 4350-4
    • (1979) Proc Natl Acad Sci U S A , vol.76 , Issue.9 , pp. 4350-4
    • Towbin, H.1    Staehelin, T.2    Gordon, J.3
  • 30
    • 68549098247 scopus 로고    scopus 로고
    • Generation of high-quality protein extracts from formalin-fixed, paraffin-embedded tissues
    • Addis, M. F.; Tanca, A.; Pagnozzi, D.; Crobu, S.; Fanciulli, G.; Cossu-Rocca, P.; Uzzau, S. Generation of high-quality protein extracts from formalin-fixed, paraffin-embedded tissues Proteomics 2009, 9 (15) 3815-23
    • (2009) Proteomics , vol.9 , Issue.15 , pp. 3815-23
    • Addis, M.F.1    Tanca, A.2    Pagnozzi, D.3    Crobu, S.4    Fanciulli, G.5    Cossu-Rocca, P.6    Uzzau, S.7
  • 31
    • 0030998145 scopus 로고    scopus 로고
    • Antigen retrieval immunohistochemistry: Past, present, and future
    • Shi, S. R.; Cote, R. J.; Taylor, C. R. Antigen retrieval immunohistochemistry: past, present, and future J Histochem Cytochem 1997, 45 (3) 327-43
    • (1997) J Histochem Cytochem , vol.45 , Issue.3 , pp. 327-43
    • Shi, S.R.1    Cote, R.J.2    Taylor, C.R.3
  • 32
    • 0033214277 scopus 로고    scopus 로고
    • The dominance of arginine-containing peptides in MALDI-derived tryptic mass fingerprints of proteins
    • Krause, E.; Wenschuh, H.; Jungblut, P. R. The dominance of arginine-containing peptides in MALDI-derived tryptic mass fingerprints of proteins Anal. Chem. 1999, 71 (19) 4160-5
    • (1999) Anal. Chem. , vol.71 , Issue.19 , pp. 4160-5
    • Krause, E.1    Wenschuh, H.2    Jungblut, P.R.3
  • 33
    • 45749127864 scopus 로고    scopus 로고
    • Mining the archival formalin-fixed paraffin-embedded tissue proteome: Opportunities and challenges
    • Nirmalan, N. J.; Harnden, P.; Selby, P. J.; Banks, R. E. Mining the archival formalin-fixed paraffin-embedded tissue proteome: opportunities and challenges Mol Biosyst 2008, 4 (7) 712-20
    • (2008) Mol Biosyst , vol.4 , Issue.7 , pp. 712-20
    • Nirmalan, N.J.1    Harnden, P.2    Selby, P.J.3    Banks, R.E.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.