For research use only. Not for use in diagnostic procedures.
The collision energy (CE) and the collision energy spread (CES) needed for peptide analysis (during protein IDA identification and SWATH™ acquisition) can be optimized using the rolling CE setting embedded in the Analyst® TF software. The collision energy (CE) and the collision energy spread define the fragmentation pattern of a peptide at a given charge state. Two different strategies can be used to find the optimal CE for different peptides, and both strategies give the same outcome.
Rolling collision energy (CE) is calculated based on the charge state of the ion (applicable to peptide experiments). The equation typically used for an unknown charge state is:
CE= m/z x 0.05 + 5
The tables below provide the values of the variables needed for determining the unknown charge state. In addition, the values in these tables vary slightly between the TripleTOF® 5600 and 6000 systems, whereby the 6600 values are slightly lower than the 5600 values.