The BioPharma Finder application displays the results of a completed peptide mapping experiment on the Process and Review page in the Results table, organized by components at the upper level and by raw data files at the lower level. You can export the data in the Results table to an Excel workbook (.xlsx), text file (.csv), BioPharma Finder results file (.bpf), or Mascot™ generic format (.mgf) file. You can also save the data to a peptide workbook (.wbpf) to run a targeted Peptide Mapping Analysis experiment or for use in the Chromeleon chromatography data system.
In addition to the Process and Review page Results table, the application displays the experiment results in several other formats, including chromatograms, trend ratio and trend MS area plots, hydrogen deuterium exchange (HDX) plots, peptide fragment coverage and protein sequence maps, and full-scan MS and MS/MS spectra, including predicted kinetic MS/MS spectra. You can view MS/MS spectra for each fragmentation type and resolution combination. Furthermore, the Coverage page displays the identified and unidentified components in the analysis, the Modification Summary page shows the recovery status and abundance of all detected modifications, and the Host Cell Protein Quantitation page displays the host cell protein impurities found in the sample.
For Peptide Mapping Analysis experiments, the application generates a base peak chromatogram (BPC) plot, which shows only the most intense peak at every point in time each spectrum over time, and a selected ion chromatogram (SIC) plot, which plots the intensity of the signal observed at a chosen mass-to-charge ratio (m/z) over time. The BPC uses color-coded shading to display identified and unidentified proteins in the chromatogram.
You can open the results of your Peptide Mapping Analysis experiment from either the Queue or Load Results page.
Peptide Mapping analysis results are displayed on the Process and Review and Mapping (which contains the Coverage, Modification Summary, Hydrogen Deuterium Exchange, and Host Cell Protein Quantitation subpages) pages.
In addition to viewing your results, you can quickly change processing parameters and resubmit your job using the real-time optimization (RTO) feature on the Process and Review page.