The following table describes the types of information on the Process and Review page.

Process and Review page parameters

Parameter

Description

Intact Fragmentation Results table

Displays the intact fragmentation results for a top down analysis experiment, organized at the following levels: Peaks, Proteoforms, Raw Data Files (for experiments with multiple raw data files.

Intact Deconvolution Results table

Displays the peak-specific intact deconvolution results for a top down analysis experiment, organized at the following levels: Components, Raw Data Files, and Charge States.

The information in the Intact Deconvolution Results table is similar to the data in the Results table for an intact mass analysis experiment using the Xtract/ReSpect algorithm and Average Over Selected Retention Time deconvolution method.

Chromatogram pane

Displays the chromatograms for the component or raw data file that you select in the Results table.

Relative Intensity (y axis)

Displays the ratio of the intensity of a specific peak to the intensity of the peak with the highest intensity.

RT (min) (x axis)

Displays the retention time (RT) of the spectrum, which is the time after injection at which a compound elutes. Retention time can also refer to the total time that the compound is retained on the chromatographic column.

Intact Fragmentation Deconvoluted Spectrum or Intact Deconvolution Deconvoluted Spectrum panes

Displays the deconvoluted spectra that result from applying the Xtract/ReSpect algorithm.

Relative Intensity (y axis)

Displays the ratio of the intensity of a specific peak to the intensity of the peak with the highest intensity.

Mass (x axis)

Displays the mass of the ions formed from molecules.

Intact Fragmentation Source Spectrum or Intact Deconvolution Source Spectrum pane

Displays the source spectra before deconvolution.

Relative Intensity (y axis)

Displays the ratio of the intensity of a specific peak to the intensity of the peak with the highest intensity.

m/z (x axis)

Displays the mass-to-charge ratio of ions formed from molecules.

ProSightBP Fragment Map pane

For MS2 scan processing, displays the fragment map and identified ion data generated by the ProSight Lite application.

ProSightBP Output pane

For MS2 scan processing, displays the monoisotopic mass, delta mass, charge state, and other ion information generated by the ProSight Lite application and the Xtract deconvolution algorithm for all of the searched fragment ions.

Intact Deconvolution Matched Sequence pane

For full-scan MS processing, displays the matched component and the matched target sequence information.

You can select a different identification in this pane to update the Intact Deconvolution Results table.

Real Time Optimization pane

Displays the same parameters as those on the Parameters > Component Detection and Identification pages so that you can adjust these parameters and perform real-time optimization.