The host proteome reflects critical cellular pathways involved in recombinant protein production including protein synthesis, the secretory pathway, protein degradation pathways, metabolic and cellular stress pathways. Its analysis can thus support host development, expression system choice and optimisation and fermentation condition optimisation.
We routinely perform 4D proteomics experiments by combining nano- HPLC, gas phase ion mobility and high-resolution tandem mass spectrometry data dependent or independent parallel accumulation– serial fragmentation. Proteins are identified by database search, quantified across groups (e.g. genotype and/or condition) and annotated employing public databases and bioinformatic tools. Our expertise has already been proven many times in external projects.