Mass spectrometry is the preferred method for the sequencing and characterization of proteins. Shotgun proteomics analysis of cell lines and tissues relies on stringent isolation of proteins in addition to degradation and removal of unwanted components like nucleic acids. Therefore, it requires mechanical breakdown accompanied by denaturing agents and heating of the samples. Matthias Mann and his team from the Department of Proteomics and Signal Transduction at the Max Plank Institute of Biochemistry developed and employed highly efficient protocols for protein isolation in conjunction with the Bioruptor® to perform quantitative proteomics.