Proteome, human plasma

Fujii, K., Nakano, T., Kawamura, T., Usui, F., Bando, Y., Wang, R., Nishimura, T. (2004). Multidimensional protein profihng technology and its application to human plasma proteome. J. Proteome Res. 3, 712-718. 

Qian, W.J., Jacobs, J.M., Camp, D.G., 2nd, Monroe, M.E., Moore, R.J., Gritsenko, M.A., Calvano, S.E., Lowry, S.F.,Xiao, W.,Moldawer, L.L., Davis, R.W., Tompkins, R.G., Smith, R.D. (2005a). Comparative proteome analyses of human plasma following in vivo lipo-polysaccharide administration using multidimensional separations coupled with tandem mass spectrometry. Proteomics 5, 572-584. 

Anderson, N.L., Anderson, N.G. (2002). The human plasma proteome history, character, and diagnostic prospects. Mol. Cell. Proteomics 1, 845-867. 

Cereulide from Bacillus cereus human plasma proteome abiotic stress-tolerant (Mandolina) and an abiotic stress-susceptible (Jubilant) barley cultivar neuropeptides from isolated locust corpora cardiaca ... 

Plematl, A., Demelbauer, U. M., Josic, D., and Rizzi, A., Determination of the site-specific and isoform-specific glycosylation in human plasma-derived antithrombin by lEF and capillary HPLC-ESl-MS/MS, Proteomics 5(15), 4025-4033, 2005. 

Anderson NL, Anderson NG (2002) The human plasma proteome. Mol Cell Proteomics 1 845-867... 

Pieper R, Su Q, Gatlin CL, Huang ST, Anderson NL, Steiner S. Multi-component immunoaffinity subtraction chromatography An innovative step towards a comprehensive survey of the human plasma proteome. Proteomics 2003 3(4) 422 132. 

Georgiou HM, Rice GE, Baker MS. Proteomic analysis of human plasma Failure of centrifugal ultrafiltration to remove albumin and other high molecular weight proteins. Proteomics 2001 1(12) 1503-1506. 

The Human Proteome Project (HUPO, www.hupo.org) initiated the Plasma Proteome Project (PPP) in 2002, and numerous laboratories have contributed to this ambitious project of deciphering all proteins contained in the human plasma. Plasma, the soluble component of the human blood, is believed to harbor thousands of distinct proteins that originate from a variety of cells and tissues through either active secretion or leakage from blood cells or tissues. For the reasons described above, HUPO recommends use of plasma instead of serum, with EDTA (or citrate) for anticoagulation and standardized sample preparation. HUPO proposes combinations of serum depletion, fractionation procedures, and MS/MS technologies, with explicit... 

M. Kullolli, W. S. Hancock, and M. Hincapie, Automated platform for fractionation of human plasma glycoproteome in clinical proteomics, Anal. Chem., 82 (2010) 115-120. 

M. A. Kuzyk, D. Smith, J. Yang, T. J. Cross, A. M. Jackson, D. B. Hardie, N. L. Anderson, and C. H. Borchers, Multiple reaction monitoring-based, multiplexed, absolute quantitation of 45 proteins in human plasma, Mol. Cell. Proteomics, 8 (2009) 1860-1877. 

Shen, Y, Moore, R. J., Anderson, D. J., Zhang, R., Calvano, S. E., etal. (2005). Quantitative proteome analysis of human plasma following in vivo lipo-polysaccharide administration using 160/180 labeling and the accurate mass and time tag approach. Mol. Cell Proteomics 4, 700-709. 

In addition to the efforts in the biotech and pharmaceutical industries, a comprehensive, multinational approach to unraveling this biological source has already started with the emergence of the Human Plasma Proteome Project. 

Adkins, J. N., Pounds, ). G., Fagan, R., etal. (2004). The human plasma proteome a nonredundant list developed by combination of four separate sources. Mol. Cell Proteomics 3, 311-326. 

Kolarich, D., Weber, A., Pabst, M., Stadlmann, J., Teschner, W., Ehrlich, H., Schwarz, H.P., Altmann, F. (2008). Glyco-proteomic characterization of butyrylcholinesterase from human plasma. Proteomics 8 254-63. 

Moritz, R.L., Clippingdale, A.B., Kapp, E.A., Eddes, J.S., Ji, H., Gilbert, S., Connolly, L.M. and Simpson, R.J. (2005) Application of 2-D free-flow electrophoresis/RP-HPLC for proteomic analysis of human plasma depleted of multi high-abundance proteins. Proteomics 5, 3402-3413. 

Wu, S.L. Amato, H. Biringer, R. Choudhary, G. Shieh, P. Hancock, W.S. Targeted proteomics of low-level proteins in human plasma by LC/MSn using human growth hormone as a model system. J. Proteome Res. 2002, 1 (5), 459-465. 

C. Greenough, R.E. Jenkins, N.R. Kitteringham, M. Pinnohamed, B.K. Park, S.R. Pennington, Method for the rapid depletion of albumin and immunoglobulin from human plasma, Proteomics, 4 (2004) 3107. 

Another modification of the LC LC-MS approach is the use of ultra-high-efficiency RPLC columns [54-55]. The system consists of a 800x0.32-pm-lD SCX column (packed with 3-pm polysulfoethyl aspartamide-bonded silica), a 40-nunx75-pm-ID RPLC trapping column, and a 800-nunx30-pm-lD RPLC colunm. The system was applied to the identification of proteins in the proteome of Deinococcus radiodurans [54], and of human plasma proteins [55]. In that case, more than 800 proteins, i.e., both low-abundance cytokines and high-abundance proteins, were identified from in total 365 pg plasma. 

Various methods were evaluated for the targeted proteomics of human growth hormone (hGH) in human plasma [111]. hGH was spiked in plasma 10-fold above natural level ( 16 pg/pl). Iiutially, the full plasma proteome was reduced, alkylated, and digested prior to LC-MS via DDA on an ion-trap instrument. hGH could be identified from its T, peptide. Next, the plasma proteome was fractionated by RPLC and GE prior to digestion and LC-MS analysis. hGH could be identified with higher confidence. Finally, an LCxLC-MS approach was apphed, which enabled hGH identification from five tryptic peptides. An important conclusion was that hGH could be detected in a complex sample at the low femtomole level among proteins that were 40,000 x more abundant. The results show that a multidimensional approach may be taken for targeted proteomics and quantitative protein bioanalysis. 

Y. Shen, J.M. Jacobs, D.G. Camp, II, R. Fang, R.J. Moore, R.D. Smith, W. Xiao, R.W. Davis, R.G. Tompkins, Ultm-high-efficiency SCX-RPLC-MS-MS for high dynamic range characterization of the human plasma proteome. Anal. Chem., 76 (2004)1134. 

Koy C, Miklcat S, Raptakis E, Sutton C, Resch M, Tanaka K, Glocker MO. Matrix-assisted laser desorp-tion/ionization-quadrupole ion trap-time of flight mass spectrometry sequencing resolves structures of unidentified peptides obtained by in-gel tryptic digestion of haptoglobin derivatives from human plasma proteomes. Proteomics. 2003 Jun 3(6) 851-8. 

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