Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips (original) (raw)
References
Aebersold, R. & Mann, M. Mass spectrometry-based proteomics. Nature422, 198–207 (2003). ArticleCAS Google Scholar
Mann, M. Functional and quantitative proteomics using SILAC. Nat. Rev. Mol. Cell Biol.7, 952–958 (2006). ArticleCAS Google Scholar
Wilm, M. & Mann, M. Analytical properties of the nanoelectrospray ion source. Anal. Chem.68, 1–8 (1996). ArticleCAS Google Scholar
Kussmann, M., Lassing, U., Sturmer, C.A., Przybylski, M. & Roepstorff, P. Matrix-assisted laser desorption/ionization mass spectrometric peptide mapping of the neural cell adhesion protein neurolin purified by sodium dodecyl sulfate polyacrylamide gel electrophoresis or acidic precipitation. J. Mass Spectrom.32, 483–493 (1997). ArticleCAS Google Scholar
Erdjument-Bromage, H. et al. Examination of micro-tip reversed-phase liquid chromatographic extraction of peptide pools for mass spectrometric analysis. J. Chromatogr. A826, 167–181 (1998). ArticleCAS Google Scholar
Gobom, J., Nordhoff, E., Mirgorodskaya, E., Ekman, R. & Roepstorff, P. Sample purification and preparation technique based on nano-scale reversed-phase columns for the sensitive analysis of complex peptide mixtures by matrix-assisted laser desorption/ionization mass spectrometry. J. Mass Spectrom.34, 105–116 (1999). ArticleCAS Google Scholar
Rappsilber, J., Ishihama, Y. & Mann, M. Stop and go extraction tips for matrix-assisted laser desorption/ionization, nanoelectrospray, and LC/MS sample pretreatment in proteomics. Anal. Chem.75, 663–670 (2003). ArticleCAS Google Scholar
Stewart, I.I., Thomson, T. & Figeys, D. 18O labeling: a tool for proteomics. Rapid Commun. Mass Spectrom.15, 2456–2465 (2001). ArticleCAS Google Scholar
Larsen, M.R., Cordwell, S.J. & Roepstorff, P. Graphite powder as an alternative or supplement to reversed-phase material for desalting and concentration of peptide mixtures prior to matrix-assisted laser desorption/ionization-mass spectrometry. Proteomics2, 1277–1287 (2002). ArticleCAS Google Scholar
Callesen, A.K. et al. Serum protein profiling by miniaturized solid-phase extraction and matrix-assisted laser desorption/ionization mass spectrometry. Rapid Commun. Mass Spectrom.19, 1578–1586 (2005). ArticleCAS Google Scholar
Ishihama, Y., Rappsilber, J. & Mann, M. Modular stop and go extraction tips with stacked disks for parallel and multidimensional peptide fractionation in proteomics. J. Proteome Res.5, 988–994 (2006). ArticleCAS Google Scholar
Ishihama, Y. et al. Quantitative mouse brain proteomics using culture-derived isotope tags as internal standards. Nat. Biotechnol.23, 617–621 (2005). ArticleCAS Google Scholar
Saito, H., Oda, Y., Sato, T., Kuromitsu, J. & Ishihama, Y. Multiplexed two-dimensional liquid chromatography for MALDI and nanoelectrospray ionization mass spectrometry in proteomics. J. Proteome Res.5, 1803–1807 (2006). ArticleCAS Google Scholar
Kokubu, M., Ishihama, Y., Sato, T., Nagasu, T. & Oda, Y. Specificity of immobilized metal affinity-based IMAC/C18 tip enrichment of phosphopeptides for protein phosphorylation analysis. Anal. Chem.77, 5144–5154 (2005). ArticleCAS Google Scholar
Larsen, M.R., Thingholm, T.E., Jensen, O.N., Roepstorff, P. & Jorgensen, T.J. Highly selective enrichment of phosphorylated peptides from peptide mixtures using titanium dioxide microcolumns. Mol. Cell. Proteomics4, 873–886 (2005). ArticleCAS Google Scholar
Sugiyama,, N., Masuda, T. & Shinoda, K. et al. Mol. Cell. Proteomics online Feb 23 (2007).
Olsen, J.V. et al. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. Cell127, 635–648 (2006). ArticleCAS Google Scholar
Villen, J., Beausoleil, S.A., Gerber, S.A. & Gygi, S.P. Large-scale phosphorylation analysis of mouse liver. Proc. Natl. Acad. Sci. USA104, 1488–1493 (2007). ArticleCAS Google Scholar
Bodenmiller, B., Mueller, L.N., Mueller, M., Domon, B. & Aebersold, R. Reproducible isolation of distinct, overlapping segments of the phosphoproteome. Nat. Methods4, 231–237 (2007). ArticleCAS Google Scholar
Ishihama, Y. & Usui, T. USA Patent No. US2006048367 (2006).