Table I Data sets used to demonstrate functionality of PTMScout

Reference name is for quick reference to the data set of interest. NA, not applicable.

Reference nameData set nameCell typeStimulationMeasurementsPTM of interestData set size (peptides)
EGF7 (12)Multiple reaction monitoring for robust quantitative proteomics analysis of cellular signaling networksHMECEGF0, 1, 2, 4, 8, 16, 32 minPhosphotyrosine222
EGF4 (1)Quantitative proteomics analysis of phosphotyrosine-mediated cellular signaling networks; supplemental Table 1HMECEGF0, 5, 10, 30 minPhosphotyrosine77
HER2 (13)Effects of HER2 overexpression on cell signaling networks governing proliferation and migrationHMEC, 24HEGF, HRG0-, 5-, 10-, 30-min EGF, HRG stimulation; parental, 24H cell linesPhosphotyrosine68
AcK (14)Lysine acetylation targets protein complexes and co-regulates major cellular functionsMV-411NANAAcetyllysine3,286