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Volumn 75, Issue 10, 2012, Pages 2844-2854

Optimized nLC-MS workflow for laser capture microdissected breast cancer tissue

Author keywords

Breast cancer; Laser capture microdissection; Methods optimization; NLC MS MS

Indexed keywords

PROTEINASE; PROTEINASE INHIBITOR; TRYPSIN;

EID: 84861341467     PISSN: 18743919     EISSN: 18767737     Source Type: Journal    
DOI: 10.1016/j.jprot.2012.01.022     Document Type: Article
Times cited : (40)

References (30)
  • 3
    • 33846682587 scopus 로고    scopus 로고
    • NanoLC FT ICR MS improves proteome coverage attainable for 3000 laser microdissected breast carcinoma cells
    • Umar A., Luider T.M., Foekens J.A., Paša-Tolić L. NanoLC FT ICR MS improves proteome coverage attainable for 3000 laser microdissected breast carcinoma cells. Proteomics 2007, 7:323-329.
    • (2007) Proteomics , vol.7 , pp. 323-329
    • Umar, A.1    Luider, T.M.2    Foekens, J.A.3    Paša-Tolić, L.4
  • 5
    • 79959424627 scopus 로고    scopus 로고
    • Quantitative, high-resolution proteomics for data-driven systems biology
    • Mann M., Cox J. Quantitative, high-resolution proteomics for data-driven systems biology. Annu Rev Biochem 2011, 80:273-299.
    • (2011) Annu Rev Biochem , vol.80 , pp. 273-299
    • Mann, M.1    Cox, J.2
  • 7
    • 3242731195 scopus 로고    scopus 로고
    • A model for random sampling and estimation of relative protein abundance in shotgun proteomics
    • Liu H., Sadygov R.G., Yates J.R. A model for random sampling and estimation of relative protein abundance in shotgun proteomics. Anal Chem 2004, 76:4193-4201.
    • (2004) Anal Chem , vol.76 , pp. 4193-4201
    • Liu, H.1    Sadygov, R.G.2    Yates, J.R.3
  • 8
    • 10744233766 scopus 로고    scopus 로고
    • Quantification of proteins and metabolites by mass spectrometry without isotopic labeling or spiked standards
    • Wang W., Zhou H., Lin H., Roy S., Shaler T.A., Hill L.R., et al. Quantification of proteins and metabolites by mass spectrometry without isotopic labeling or spiked standards. Anal Chem 2003, 75:4818-4826.
    • (2003) Anal Chem , vol.75 , pp. 4818-4826
    • Wang, W.1    Zhou, H.2    Lin, H.3    Roy, S.4    Shaler, T.A.5    Hill, L.R.6
  • 10
    • 22044435256 scopus 로고    scopus 로고
    • Method optimisation for peptide profiling of microdissected breast carcinoma tissue by matrix assisted laser desorption/ionisation time of flight and matrix assisted laser desorption/ionisation time of flight/time of flight mass spectrometry
    • Umar A., Dalebout J.C.H., Timmermans A.M., Foekens J.A., Luider T.M. Method optimisation for peptide profiling of microdissected breast carcinoma tissue by matrix assisted laser desorption/ionisation time of flight and matrix assisted laser desorption/ionisation time of flight/time of flight mass spectrometry. Proteomics 2005, 5:2680-2688.
    • (2005) Proteomics , vol.5 , pp. 2680-2688
    • Umar, A.1    Dalebout, J.C.H.2    Timmermans, A.M.3    Foekens, J.A.4    Luider, T.M.5
  • 11
    • 79951540395 scopus 로고    scopus 로고
    • Reproducibility of protein identification of selected cell-types in Barrett's esophagus analyzed by combining laser-capture micro-dissection and mass spectrometry
    • Stingl C., van Vilsteren F.G.I., Guzel C., Ten Kate F.J.W., Visser M., Krishnadath K.K., et al. Reproducibility of protein identification of selected cell-types in Barrett's esophagus analyzed by combining laser-capture micro-dissection and mass spectrometry. J Proteome Res 2010, 10:288-298.
    • (2010) J Proteome Res , vol.10 , pp. 288-298
    • Stingl, C.1    van Vilsteren, F.G.I.2    Guzel, C.3    Ten Kate, F.J.W.4    Visser, M.5    Krishnadath, K.K.6
  • 12
    • 29244448703 scopus 로고    scopus 로고
    • Parts per million mass accuracy on an Orbitrap mass spectrometer via lock mass injection into a C-trap
    • Olsen J.V., de Godoy L.M.F., Li G., Macek B., Mortensen P., Pesch R., et al. Parts per million mass accuracy on an Orbitrap mass spectrometer via lock mass injection into a C-trap. Mol Cell Proteomics 2005, 4:2010-2021.
    • (2005) Mol Cell Proteomics , vol.4 , pp. 2010-2021
    • Olsen, J.V.1    de Godoy, L.M.F.2    Li, G.3    Macek, B.4    Mortensen, P.5    Pesch, R.6
  • 13
    • 0033434080 scopus 로고    scopus 로고
    • Probability based protein identification by searching sequence databases using mass spectrometry data
    • Perkins D.N., Pappin D.J.C., Creasy D.M., Cottrell J.S. Probability based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis 1999, 20:3551-3567.
    • (1999) Electrophoresis , vol.20 , pp. 3551-3567
    • Perkins, D.N.1    Pappin, D.J.C.2    Creasy, D.M.3    Cottrell, J.S.4
  • 14
    • 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, 74:5383-5392.
    • (2002) Anal Chem , vol.74 , pp. 5383-5392
    • Keller, A.1    Nesvizhskii, A.I.2    Kolker, E.3    Aebersold, R.4
  • 15
    • 0042338362 scopus 로고    scopus 로고
    • A statistical model for identifying proteins by tandem mass spectrometry
    • Nesvizhskii A.I., Keller A., Kolker E., Aebersold R. A statistical model for identifying proteins by tandem mass spectrometry. Anal Chem 2003, 75:4646-4658.
    • (2003) Anal Chem , vol.75 , pp. 4646-4658
    • Nesvizhskii, A.I.1    Keller, A.2    Kolker, E.3    Aebersold, R.4
  • 16
    • 57449099865 scopus 로고    scopus 로고
    • MaxQuant enables high peptide identification rates, individualized ppb-range mass accuracies and proteome-wide protein quantification
    • Cox J., Mann M. MaxQuant enables high peptide identification rates, individualized ppb-range mass accuracies and proteome-wide protein quantification. Nat Biotechnol 2008, 26:1367-1372.
    • (2008) Nat Biotechnol , vol.26 , pp. 1367-1372
    • Cox, J.1    Mann, M.2
  • 18
    • 0032441150 scopus 로고    scopus 로고
    • Cluster analysis and display of genome-wide expression patterns
    • Eisen M.B., Spellman P.T., Brown P.O., Botstein D. Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci 1998, 95:14863-14868.
    • (1998) Proc Natl Acad Sci , vol.95 , pp. 14863-14868
    • Eisen, M.B.1    Spellman, P.T.2    Brown, P.O.3    Botstein, D.4
  • 19
    • 0030017818 scopus 로고    scopus 로고
    • Measurement error proportional to the mean
    • Bland J.M., Altman D.G. Measurement error proportional to the mean. BMJ 1996, 313:106.
    • (1996) BMJ , vol.313 , pp. 106
    • Bland, J.M.1    Altman, D.G.2
  • 20
    • 0036124318 scopus 로고    scopus 로고
    • MRNA expression profiling of laser microbeam microdissected cells from slender embryonic structures
    • Scheidl S.J., Nilsson S., Kalén M., Hellström M., Takemoto M., Håkansson J., et al. mRNA expression profiling of laser microbeam microdissected cells from slender embryonic structures. Am J Pathol 2002, 160:801-813.
    • (2002) Am J Pathol , vol.160 , pp. 801-813
    • Scheidl, S.J.1    Nilsson, S.2    Kalén, M.3    Hellström, M.4    Takemoto, M.5    Håkansson, J.6
  • 21
    • 34250345260 scopus 로고    scopus 로고
    • Principles of laser microdissection and catapulting of histologic specimens and live cells
    • Vogel A., Horneffer V., Lorenz K., Linz N., Hüttmann G., Gebert A. Principles of laser microdissection and catapulting of histologic specimens and live cells. Methods Cell Biol 2007, 82:153-205.
    • (2007) Methods Cell Biol , vol.82 , pp. 153-205
    • Vogel, A.1    Horneffer, V.2    Lorenz, K.3    Linz, N.4    Hüttmann, G.5    Gebert, A.6
  • 22
    • 84861348351 scopus 로고    scopus 로고
    • Determining protein degradation and protease activity in samples obtained by Laser Capture Microdissection
    • Stingl C., Vilsteren F.G.I., Phoa K.N., Borén M., Alenas K., Bergman J.J., et al. Determining protein degradation and protease activity in samples obtained by Laser Capture Microdissection. HUPO 2011.
    • (2011) HUPO
    • Stingl, C.1    Vilsteren, F.G.I.2    Phoa, K.N.3    Borén, M.4    Alenas, K.5    Bergman, J.J.6
  • 23
    • 0035416831 scopus 로고    scopus 로고
    • Overalkylation of a protein digest with iodoacetamide
    • Boja E.S., Fales H.M. Overalkylation of a protein digest with iodoacetamide. Anal Chem 2001, 73:3576-3582.
    • (2001) Anal Chem , vol.73 , pp. 3576-3582
    • Boja, E.S.1    Fales, H.M.2
  • 24
    • 62249095261 scopus 로고    scopus 로고
    • Coupling of a vented column with splitless nanoRPLC-ESI-MS for the improved separation and detection of brain natriuretic peptide-32 and its proteolytic peptides
    • Andrews G.L., Shuford C.M., Burnett J.C., Hawkridge A.M., Muddiman D.C. Coupling of a vented column with splitless nanoRPLC-ESI-MS for the improved separation and detection of brain natriuretic peptide-32 and its proteolytic peptides. J Chromatogr B 2009, 877:948-954.
    • (2009) J Chromatogr B , vol.877 , pp. 948-954
    • Andrews, G.L.1    Shuford, C.M.2    Burnett, J.C.3    Hawkridge, A.M.4    Muddiman, D.C.5
  • 25
    • 77949776559 scopus 로고    scopus 로고
    • Development of mass spectrometry-based shotgun method for proteome analysis of 500 to 5000 cancer cells
    • Wang N., Xu M., Wang P., Li L. Development of mass spectrometry-based shotgun method for proteome analysis of 500 to 5000 cancer cells. Anal Chem 2010, 82:2262-2271.
    • (2010) Anal Chem , vol.82 , pp. 2262-2271
    • Wang, N.1    Xu, M.2    Wang, P.3    Li, L.4
  • 26
    • 33644856320 scopus 로고    scopus 로고
    • Effects of modified digestion schemes on the identification of proteins from complex mixtures
    • Klammer A.A., MacCoss M.J. Effects of modified digestion schemes on the identification of proteins from complex mixtures. J Proteome Res 2006, 5:695-700.
    • (2006) J Proteome Res , vol.5 , pp. 695-700
    • Klammer, A.A.1    MacCoss, M.J.2
  • 27
    • 80655142296 scopus 로고    scopus 로고
    • Standardization of a sample preparation and analytical workflow for proteomics of archival endometrial cancer tissue
    • Alkhas A., Hood B.L., Oliver K., Maxwell G.L., Conrads T.P. Standardization of a sample preparation and analytical workflow for proteomics of archival endometrial cancer tissue. J Proteome Res 2011, 10:5264-5271.
    • (2011) J Proteome Res , vol.10 , pp. 5264-5271
    • Alkhas, A.1    Hood, B.L.2    Oliver, K.3    Maxwell, G.L.4    Conrads, T.P.5
  • 28
    • 3042815334 scopus 로고    scopus 로고
    • Trypsin cleaves exclusively C-terminal to arginine and lysine residues
    • Olsen J.V., Ong S.E., Mann M. Trypsin cleaves exclusively C-terminal to arginine and lysine residues. Mol Cell Proteomics 2004, 3:608-614.
    • (2004) Mol Cell Proteomics , vol.3 , pp. 608-614
    • Olsen, J.V.1    Ong, S.E.2    Mann, M.3
  • 29
    • 53049107743 scopus 로고    scopus 로고
    • Application of pressurized solvents for ultrafast trypsin hydrolysis in proteomics: proteomics on the fly
    • López-Ferrer D., Petritis K., Hixson K.K., Heibeck T.H., Moore R.J., Belov M.E., et al. Application of pressurized solvents for ultrafast trypsin hydrolysis in proteomics: proteomics on the fly. J Proteome Res 2008, 7:3276-3281.
    • (2008) J Proteome Res , vol.7 , pp. 3276-3281
    • López-Ferrer, D.1    Petritis, K.2    Hixson, K.K.3    Heibeck, T.H.4    Moore, R.J.5    Belov, M.E.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.