Proteome, mouse brain

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. 

Lohaus, C., Nolte, A., Blueggel, M., Scheer, C., Klose, J., Gobom, J., Schueler, A., Wiebrin-ghaus, T., Meyer, H.E., Marcus, K. (2007). Multidimensional chromatography a powerful tool for the analysis of membrane proteins in mouse brain. J. Proteome Res. 6(1), 105-113. 

Examples using KC1 that require desalting include the identification of the human saliva proteome (Wilmarth et al., 2004), the B. infantis proteome (Vitali et al., 2005), phosphoproteins from HeLa cells (Beausoleil et al., 2004), and phosphoproteins from mouse brain (Ballif et al., 2004). One of the important points to consider is that... 

We conducted proteomic analysis of the KO mouse brain to identify proteins or peptides whose expression levels may change due to a lack of SCRAPPER. Imaging MS allowed us to statistically analyze location and expression intensities of many biomolecules and to extract molecules that exhibited region-specific expression. Groups of molecules whose expression patterns differed between WT mice and KO mice particularly attracted our attention. 

Yao I, Sugiura Y, Matsumoto M, et al. In situ proteomics with imaging mass spectrometry and principal component analysis in the Scrapper-knockout mouse brain. Proteomics 2008 8 3692-3701. 

Zhu, J. X., Doyle, H. A., Mamula, M. J., and Aswad, D. W. (2006). Protein repair in the brain, proteomic analysis of endogenous substrates for protein L-isoaspartyl methyltransferase in mouse brain. ]. Biol. Chem. 28,33802-33813. 

T., Kamo, M., Matsui, T., Watanabe, Y., Mori-masa, T., Hosokawa, K., Toda, T. (2000) Proteome analysis of mouse brain two-dimensional electrophoresis profiles of tissue proteins during the course of aging. Electrophoresis. 21,1853-1871... 

Park, B., Jeong, SK, Lee, WS., Seong, JK, Paik, YK. (2004) A simple pattern classification method for alcohol-responsive proteins that are differentially expressed in mouse brain. Proteomics. 4, 3369-3375... 

Olsen JY, Andersen JR, Nielsen PA, Nielsen ML, Figeys D, Mann M, Wisniewski JR. HysTag—a novel proteomic quantification tool applied to differential display analysis of membrane proteins from distinct areas of mouse brain. Mol Cell Proteomics 2004 3 82-92. 

Fractionation of proteins by strong cation exchange (SCX) chromatography, followed by IMAC enrichment of phosphopeptides from SCX fractions, led to a comprehensive identification of phosphoproteins of PSD isolated from mouse brain using LC-MS/MS (Trinidad et al. 2006). In this study, phosphorylation site(s) were mapped to 287 proteins from a total of 1,264 unique proteins identified. This translates into a 23% phosphorylation rate, comparable to an expected 33% rate in the general proteome (Johnson et al. 2005). The 287 phosphoproteins were derived from a total of 998 unique phosphorylated peptides, and the phosphorylations were mapped to 723 unique sites. Most of these occurred on serines, to a lesser extent on threonines, and only minimally on tyrosines (Figure 5A). 

Prokai, L., Stevens, S.M. Jr., Rauniyar, N., Nguyen, V. (2009) Rapid label-free identification of estrogen-induced differential protein expression in vivo from mouse brain and uterine tissue. Journal of Proteome Research, 8, 3862-3871. 

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