Patent ID: 7479629

Claim:
A method of analyzing two or more compound ions during an analysis cycle of a tandem mass spectrometer system, the method comprising: analyzing the compound ions during a plurality of sets of analysis sub-cycles, wherein each of the compound ions is analyzed during each of said sets of sub-cycles, wherein the sub-cycles of a set occur consecutively in time, and wherein each sub-cycle uses a fixed collision cell energy, wherein: a first compound ion is analyzed during a sub-cycle of a first set of sub-cycles using a first collision cell energy; and a second compound ion is analyzed during another sub-cycle of said first set of sub-cycles using said first collision cell energy; and the first compound ion is analyzed during a sub-cycle of a second set of sub-cycles using a second collision cell energy different than the first collision cell energy the second compound ion is analyzed during another sub-cycle of said second set of sub-cycles using said second collision cell energy.