Patent ID: 8335655

Claim:
A system for automatically determining mass spectrometer parameters used to tune a mass spectrometer for multiple reaction monitoring, comprising: a mass spectrometer that receives a single injection of a sample and performs two or more precursor ion scans and a plurality of product ion scans for each precursor ion scan of the two or more precursor ion scans from the single injection, wherein the each precursor ion scan is produced with different mass spectrometer parameters that create a different level of ion current for a same precursor ion, a processor that is in communication with the mass spectrometer, wherein the processor analyzes mass spectra of the two or more precursor ion scans to determine if saturation has occurred in any of the two or more precursor ion scans and performs saturation correction for a precursor ion scan of the two or more precursor ion scans if saturation has occurred in the precursor ion scan, the processor selects a precursor ion scan of the two or more precursor ion scans that produces the highest ion current with the least amount of saturation, and the processor determines mass spectrometer parameters used to tune the mass spectrometer for multiple reaction monitoring from mass spectrometer parameters of the selected precursor ion scan and mass spectrometer parameters of one or more product ion scans from one or more fragments produced from the selected precursor ion scan.