Characterisation of the variation of mouse brain proteome by two-dimensional electrophoresis.

Neuroproteomics is aimed to study the molecular organisation of the nervous system at the protein level. Two-dimensional electrophoresis is the most frequently used technique in quantitative proteomics. The aim of this study was to assess the experimental and biological variations on this proteomic platform using mouse brain tissue. Mice are the most generally used lab animals for modelling human disease or investigating the effect of a drug-candidate or a treatment. Experimental design plays a crucial role in quantitative proteomics, hence understanding and minimizing the variables is essential. Our results indicate that the technical variance dominantly contributes to the total variance in mouse brain and the genetic background has a negligible effect on the total variation. The results also characterise the anticipated variation using mouse brain for proteomic study hence they should be useful for future experimental design in other proteomics laboratories.