Multiple technical routes to obtain a proteomics expression profile of French liver samplesElectronic supplementary information (ESI) available. See DOI: 10.1039/c3ay42146e

The liver is an important organ and is the biggest digestive gland in the human body. The establishment of a proteome database of the human liver would provide useful information for human liver disease treatment. In order to maximize protein identification and to compare different analyses, multiple technical routes were used for proteome profiling of French liver samples. Five strategies, including two two-dimensional electrophoresis (2DE) methods and three multi-dimensional liquid chromatography (MDLC) methods were evaluated. By using these five routes, 1627 unique proteins were finally identified. Various bioinformatics analyses focused on physicochemical properties and functional classification were used to examine the characteristics of the protein expression profile. Furthermore, comparison of these data with an existing liver expression profile provided by UNIGENE and UNIPROT allowed us to investigate the identification efficiency of this dataset. The different technical methods were evaluated and compared to make a model of the organ proteome profile.