Label-Free Quantitation and Mapping of the ErbB2 Tumor Receptor by Multiple Protease Digestion with Data-Dependent (MS1) and Data-Independent (MS2) Acquisitions
Figure 4
ErbB2 peptides that can reproducibly detect a given fold change using high resolution mass spectrometry and MS1 Filtering. (a) ErbB2 peptides from each of the four digestion conditions tested rank ordered by %CV. The left -axis represents the %CV for each peptide and the right -axis represents the detectable fold change between two conditions for three biological replicates per condition as determined by a two-sample comparison of means test. A twofold change can be detected by peptides with a %CV less than 27% which are shaded. (b) The percent of all peptides identified (5% FDR) in each of the four digestion conditions that can detect a 2-fold change or less (≤2), a 2-3-fold change (2-3), or only a fold change greater than 3 (≥3) between two conditions in three biological replicates per condition.
