The SRMAtlas is a compendium of targeted proteomics assays to detect and quantify proteins in complex proteome digests by mass spectrometry. It results from high-quality measurements of natural and synthetic peptides conducted on a triple quadrupole mass spectrometer, and is intended as a resource for selected/multiple reaction monitoring (SRM/MRM)-based proteomic workflows.
   Users can currently query transitions from Yeast, Human, and Mouse. The yeast library is based on both natural samples and synthetic pepides run on a 4000 QTRAP instrument, supplemented with ion-trap observations and predictions, where QQQ spectra are not available.
   We provide a web-interace and command-line tools which allow users to query these assays. The optimal coordinates for establishing an SRM assay can be readily exported and uploaded to the SRM/MRM method of a triple quadrupole mass spectrometer. The assays can then be used to detect and quantify at high-throughput deliberately chosen set of target proteins in any biological sample of interest.