MALDI-HDMSE: A Novel ‘Data Independent’ Acquisition Method for the Enhanced Analysis of 2D-Gel Tryptic Peptide Digests
Application Note Oct 05, 2012
Washington University School of Medicine
Peptide Mass Fingerprinting (PMF) is an unbiased protein identification technique that offers limited sequence information for identification purposes due to the reliance on the m/z measurement of proteolytic peptides.
An alternative technique commonly used conducts MS/MS sequencing experiments by fragmenting the tryptic peptides through sequential selection using the first analyzer of a mass spectrometer. This MS/MS approach has the following limitations:
■ Only the most intense peptides are fragmented
■ The user must choose the peptide to fragment
■ Information is limited, as peptides can be missed if the sample is depleted
■ After the sample is discarded, regaining knowledge from the sample is not feasible
■ Potentially more time consuming than PMF alone
This application note proposes a novel method of acquiring data called High Definition MSE (HDMSE). This method maintains the independent nature of PMF but extends its utility by providing molecular and MS/MS-like peptide sequence information in a simple, generic fashion.