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. 2016 Oct 14;4:40. doi: 10.3389/fchem.2016.00040

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Copyright © 2016 Pontes and de Sousa.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Workflow of the gold standard strategy in shotgun proteomics. Here, peptides are separated online in a reverse-phase liquid chromatography and electrosprayed into the mass analyzer. The mass spectrometer measures the peptides' m/z and intensity in the MS1 cycle. Upon fragmentation, the product ions of each peptide are reanalyzed to obtain sequence information of the analyte in the MS2 cycle. Once this experimental data is acquired, information is searched against a database of the organism of interest to identify the proteins in the sample.