Proteomics

Proteomics refers to MS methods for detecting large numbers of proteins within a complex sample or whole proteome. Protein identification is conducted by digesting a protein sample into peptides using endoproteases and LC-MS/MS analysis to match the peptide fragment ions to a corresponding protein database. Large-scale proteomic experiments can detect up or down-regulation of proteins using tandem mass tags (TMT ) or label-free quantification (LFQ) methods. Example applications include host cell protein (HCP) composition and detection of over-expressed proteins in a complex proteome background.

Volcano plot based on quantified proteins in Shuffle E. coli proteome. Non-significantly expressed proteins (blue); non-significantly differentially expressed proteins (grey); significantly expressed proteins (red).