Protein abundant

Anderson, N. L., Esquer-Blasco, R., Richardson, F., Foxworthy, P., and Eacho, P. (1996). The effects of peroxisome proliferators on protein abundances in mouse liver. Toxicol. Appl. Pharmacol. 137, 75-89. 

Approximately 90% to 95% of whole-cell MALDI MS profiles are representative of the ribosomal proteins abundant in rapid growth whole cells. Although the identification of proteins, from whole bacterial cells, by MALDI-TOF MS analysis is ambiguous, at best, due to the low-mass accuracy and resolving power, several researchers realized that many of the observed... 

The enormous dynamic range of proteins in the sample represents an additional difficulty in proteome analysis. The best example is semm with a protein abundance ranging over eleven orders of magnitude (Anderson and Anderson, 2002). To detect the low abundant species, one has to load a sufficient amount of digest on a column to meet the limit of detection (LOD) of the MS instrument. Some reports published used up to 2.5 L of plasma with an extensive fractionation of intact proteins prior to LC-MS analysis on the peptide level (Rose et al., 2004). 

Liu, H., Sadygov, R.G., Yates, J.R, III (2004). A model for random sampling and estimation of relative protein abundance in shotgun proteomics. Anal. Chem. 76, 4193 4201. 

Stulik J et al. Protein abundance alterations in matched sets of macroscopically normal colon mucosa and colorectal carcinoma. Electrophoresis 1999 20 3638-3646. 

Reproducibility testing demonstrated that protein abundance measured using the spectral counting method exhibited a Pearson correlation R2 value >0.99 and a coefficient of variance of 14% (Fig. 20.6). 

Zappacosta, F., and Annan, R.S. (2004) N-terminal isotope tagging strategy for quantitative proteomics Results-driven analysis of protein abundance changes. Anal. Chem. 76, 6618-6627. 

Oncomodulin Osteocalcin regulator (374) P-Parvalbumin (375) Extracellular protein abundant in bone and in dentin (376,377)... 

Measurements of gene expression or protein abundance, which are often favored in metabolic engineering, do not necessarily provide a route to understand what is occurring within metabolic systems. 

J. Eriksson and D. Fenyo. Improving the Success Rate of Proteome Analysis by Modeling Protein-Abundance Distributions and Experimental Designs. Nat. Biotechnol., 25, no. 6 (2007) 651-655. 

Relative protein abundance End point expression pattern Gene function... 

To compare the molecular mechanisms of circadian clocks in divergent species, we cloned and analysed circadian mRNA expression of human clock genes in serum shocked fibroblasts. We also developed novel antisera and examined the temporal expression of three PER proteins (hPERl, hPER2, and hPER3). The results showed robust circadian profiles of hPER protein abundance, phosphorylation and degradation. 

Parkinson disease, some cases of Alzheimer disease, and some types of prion disease are accompanied by the presence of Lewy bodies within the cytoplasm of neurons and also in nearby glia. These deposits consist largely of a dense core of fibrils of a-synuclein, a small 140-residue protein abundant in various parts... 

A minority of proteins make up a large proportion of the total protein abundance in most samples, and thus, the coverage of a proteome is highly... 

Various quantitative and statistical validation processes have been described, accounting for the fact that SpCs tend to be small numbers and vary due to the partial stochasticity of the process. In the example datasets included in this chapter, the relationship between the SpC and protein abundance obtained experimentally is shown in Figure 2, demonstrating that many proteins in bacterial cells are low in abundance while a small subset are highly abundant. Several studies have compared label-free with labeling methods or assessed its statistical validity (93-95). Overall, SpC alone should not be used as a means for absolute quantification (92,96), but it is quite adequate for... 

Anderson L, Seilhamer J. A comparison of selected mRNA and protein abundances in human liver. Electrophoresis 1997 18 533-537. 

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