Supplementary Figure 5: Examples of TagGraph-assigned peptide-spectrum matches that conflict with high-confidence SEQUEST assignments.
From: TagGraph reveals vast protein modification landscapes from large tandem mass spectrometry datasets
Representative spectra demonstrating superior fragment ion assignments made by TagGraph for peptides more consistent with LysC digestion than the conflicting peptides SEQUEST assigned to the same spectra. Both results were assigned scores consistent with a 1% FDR on the A375 dataset with respect to each set of search results.
