Comparative proteomic phenotyping of cell lines and primary cells to assess preservation of cell type-specific functions.

ABSTRACT: Biological experiments are most often performed with immortalized cell lines because they are readily available and can be expanded without limitation. However, cell lines may differ from the in vivo situation in important aspects. Here we introduce a straightforward methodology to compare cell lines to their cognate primary cells and to derive a comparative functional phenotype. We used SILAC (stable isotope labeling by amino acids in cell culture) for quantitative, mass spectrometry-based comparison of the hepatoma cell line Hepa1-6 with primary hepatocytes. The resulting quantitative proteome of 4,063 proteins had an asymmetric distribution, with many proteins down-regulated in the cell line. Bioinformatic analysis of the quantitative proteomics phenotypes revealed that Hepa1-6 cells we

SUBMITTER: Pan C 

PROVIDER: S-EPMC2649808 | biostudies-literature | 2009 Mar

REPOSITORIES: biostudies-literature