Journal of Proteomics & Bioinformatics- Open Access www.omicsonline.com Research Article JPB/Vol.1/August 2008 J Proteomics Bioinform Volume 1(5):250-257(2008)- 250

These authors contribute equally to this work Serum proteome analysis provides a potential promising approach in disease diagnosis and therapeutic moni-toring. However, the large dynamic range of proteins, high-abundant proteins, excess of salt and lipid in serum makes the analysis very challenging. Therefore, it is imperative to improve the dissolution of proteins in two-dimensional gel electrophoresis (2-DE), and enhance the ability to analyze the proteome of serum under a wide variety of physiological conditions. This study examined the effects of various combinations of depletion high-abundant protein, precipitated means, hot SDS treatment and IPG strips with different pH on 2-DE map for mouse serum. Finally the removal of high-abundant proteins in serum by the ProteoExtractTM Albumin Removal column, ethanol precipitation, the heating with 2.5 % SDS and 2.3 % DTT to denature sample at 95oC for 3 min, and IEF on pH 4-7 IPG strips (17cm) with 100 µg depleted serum proteins are generally recommended for serum proteome analysis on 2-DE by silver staining, which can effectively improve the resolution and intensity of low-abundant proteins. The optimized conditions help to produce a better reference 2-DE gel of serum samples for following identification potential novel disease markers