Expediting the development of targeted SRM assays: using data from shotgun proteomics to automate method development.

ABSTRACT: Selected reaction monitoring (SRM) is a powerful tandem mass spectrometry method that can be used to monitor target peptides within a complex protein digest. The specificity and sensitivity of the approach, as well as its capability to multiplex the measurement of many analytes in parallel, has made it a technology of particular promise for hypothesis driven proteomics. An underappreciated step in the development of an assay to measure many peptides in parallel is the time and effort necessary to establish a usable assay. Here we report the use of shotgun proteomics data to expedite the selection of SRM transitions for target peptides of interest. The use of tandem mass spectrometry data acquired on an LTQ ion trap mass spectrometer can accurately predict which fragment ions will produce t

SUBMITTER: Prakash A 

PROVIDER: S-EPMC2743471 | biostudies-literature | 2009 Jun

REPOSITORIES: biostudies-literature