Mass spectrometry proteome analysis

ID-LC-MS Shotgun Tandem Mass Spectrometry Proteomic Analysis 1494... 

Groseclose MR, Massion PP, Chaurand P, et al. High-throughput proteomic analysis of formalin-fixed paraffin-embedded tissue microarrays using MALDI imaging mass spectrometry. Proteomics 2008 8 3715-3724. 

The practice of protein analysis of whole proteomes relies on (i) two-dimensional gel electrophoresis for separation (ii) mass spectrometry for analysis and (iii) protein arrays for achieving massively parallel analysis. 

Liang CR, Leow CK, Neo JC, Tan GS, Lo SL, Lim JW, et al. Proteome analysis of human hepatocellular carcinoma tissues by two-dimensional difference gel electrophoresis and mass spectrometry. Proteomics 2005 5(8) 2258-2271. 

Li, N., Shaw, A.R., Zhang, N.,Mak,A. andLi, L.(2004)Lipidraftproteomics analysis of in-solution digest of sodium dodecyl sulfate-solubilized lipid raft proteins by liquid chromatography-matrix-assisted laser desorption/ionization tandem mass spectrometry. Proteomics 4, 3156-3166. 

Schrimpf, S., Meskenaite, V., Bmnner, E., Rutishauser, D., Walther, R, Eng, J., Aebersold, R. and Sonderegger, P. (2005) Proteomic analysis of synaptosomes using isotope-coded affinity tags and mass spectrometry. Proteomics 5, 2531-2541. 

There have been signihcant advances to harvest the power of the mass spectrometry-based analysis technique. The ability to perform real-time scanning experiments with real-hme automated dynamic feedback has become an essenhal component of qualitahve analysis, such as biotransformahon or proteomics applicahons. Most commercial mass spectrometry software packages provide the ability to perform data-dependent scanning procedures. Metabolic prohling and proteomics generate large quanhties of data that must be quickly and efficiently interpreted and hltered such that the data can be quickly reported in a way that will support rapid decisions. 

Damoc, E., Youhnovski, N., Crettaz, D., Tissot, J.D., and Przybylski, M,.(2003, High resolution proteome analysis of cryoglobulins using Fourier transform-ion cyclotron resonance mass spectrometry. Proteomics, in press. 

Belghazi, M. Bathany, K. Hountondji, C. Grandier-Vazeille, X. Manon. S. Schmitter, J.M. Analysis of protein sequences and protein complexes by matrix-assisted laser desorption/ionization mass spectrometry. Proteomics 2001. 1, 946-954. 

Ihling, C. Sinz, A. Proteome analysis of E. coli using HPLC and FT-ICR mass spectrometry. Proteomics 2005, 5, 2029-2042. 

Wales, T.E., Eggertson, M.J., Engen, J.R. (2013) Considerations in the analysis of hydrogen exchange mass spectrometry data Mass spectrometry data analysis in proteomics. Methods Mol Biol, 1007,263-288. 

Morris, J.S., Brown, P.J., Herrick, R.C., Baggerly, K.A., and Coombes, K.R. (2008) Bayesian analysis of mass spectrometry proteomic data using wavelet-based functional mixed models. Biometrics, 64 (2), 479-489. 

Matthiesen, R. (ed.) (2007) Mass Spectrometry Data Analysis in Proteomics. Humana Press, Totowa, NJ. 

Lee, Y. H., Kim, M. S., Choie, W. S., Min, H. K., Lee, S. W. (2004) Hi y informative proteome analysis by combining improved N-terminal sulfonation for de novo peptide sequencing and online capillary reverse-phase liquid chromatography/tandem mass spectrometry. Proteomics, 4, 1684-1694. 

Garcia, A., Prabhakar, S., Brock, C.J., Pearce, A.C., Dwek,. RA., Watson, S.P., Hebestreit, H.F., and Zitzmann, N. 2004. Extensive analysis of the human platelet proteome by two-dimensional gel electrophoresis and mass spectrometry. Proteomics 4 656-668. 

A new chapter on the primary structure of proteins, which provides coverage of both classic and newly emerging proteomic and genomic methods for identifying proteins. A new section on the appHcation of mass spectrometry to the analysis of protein structure has been added, including comments on the identification of covalent modifications. 

Gauss, C., Kalkum, M., Lowe, M., Lehrach, H., and Klose, J. (1999). Analysis of the mouse proteome. (I) Brain proteins Separation by two-dimensional electrophoresis and identification by mass spectrometry and genetic variation. Electrophoresis 20, 575-600. 

---