N-Linked Glycopeptide Identification Based on Open Mass Spectral Library Search

Figure 4

(a-b) Comparison between 3,153 consistent GPSMs and 4,341 additionally identified GPSMs by pMatchGlyco at 1% FDR in terms of average number and average summed intensity of matched ions. (c-d) Two methods to validate the FDR estimation method used by pMatchGlyco. All matches are shown and no filtering of any kind for output was performed. (c) The top 10 identifications from original spectra. (d) The top 10 identifications from the modified spectra in which each peak was shifted by 10 m/z unit except oxonium ions.

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