Optimal CE Voltages for Peptide Analysis on TripleTOF® Systems

For research use only. Not for use in diagnostic procedures.

Answer

The collision energy (CE) and the collision energy spread (CES) needed for peptide analysis (during protein IDA identification and SWATH® acquisition) can be optimized per peptide during acquisition using the rolling CE feature 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.

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 Slope + Intercept

The tables below provide the values of the variables needed for determining the unknown charge state. These values were re-determined recently for TripleTOF® Systems on a large population of tryptic peptides, and we suggest that the new table be used for performing IDA or SWATH acquisition on peptide samples.

Please watch this link for further information on the recent optimization study or to download a text file of the collision collision energy settings: https://sciex.com/community/application-discussions/proteomics/swath/data-acquisition/crowdsourcing-optimized-rolling-collision-energy-curves-for-id-and-swath-acquisition.