Fig. 3.

Although the percentage of new HeLa peptide detections increases with wider total precursor ranges, the number of detections in individual wide-window experiments is highest at 400–1000 m/z because of the tradeoff of increased overall m/z range with decreased window selectivity for any given window. This holds true for triplicate analyses searched with the Pan-Human library (blue triangle) and searched with two types of sample-specific libraries: a Pan-Human library-based chromatogram library (black circle), and a FASTA-based chromatogram library (red square) generated with Pecan.