( ndant proteins is expected to remove ...)Protein Depletion for Plasma and Serum Proteomic Analysis

ndant proteins is expected to remove about 85% and 90%, respectively, of the total proteins [71,100]. For example, columns containing affinity ligands for the top six abundant proteins have been shown to improve the visualization, detection and identification of more low abundance proteins [38,70,73,74,99- 101,106,109,112,129-133], when compared to depletion of only HSA and IgGs. In addition, data from the HUPO Plasma Proteome Project clearly showed that depletion of the most abundant proteins in serum, whether only albumin, albumin and IgGs, or the six most abundant proteins, improved detection of some of the low abundance proteins [80]. However, the same report also indicated incomplete sampling of proteins is a dominant feature. Part of the reason is likely the limitation in the amount of sample that can be loaded for analysis, before the remaining high abundance proteins interfere with the analysis. An affinity column designed to remove the 12 most abundant proteins is also available, but experimental data on this product is yet to emerge.

2.3 Depletion of 20 abundant proteins
It has been suggested that removal of 18 to 22 of the most abundant proteins is desirable in order to effect an overall depletion of 98 to 99 percent of the total proteins [100,134]. A new affinity column with high binding capacity has been developed. The ProteoPrep 20 Plasma Immunodepletion Kit (PROT20) is the only commercially available product that contains immunoaffinity ligands designed to remove 20 of the abundant proteins (Table 1) in human plasma or serum [128]. This novel technology is the most power
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