The following table describes the types of information on the Process and Review page.
Parameter | Description |
|---|---|
Results table | Displays, at the upper level, the components and their oligonucleotide sequences, retention times, modifications, and detected masses, along with their confidence scores. At the lower level, the table displays all of the raw data files that are loaded for the experiment and their information. |
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. |
Oligo Match ID Details pane | Provides detailed fragment information for a selected component when MS2 data is available. Editable in real-time. |
Trend Ratio pane | Displays the bar plots for the ratios between various conditions and the reference condition for the component that you select in the Results table. |
Ratio value (y axis) | Displays the Avg MS Area value for a particular condition/Avg MS Area value for the reference condition. |
Ratio conditions (x axis) | Displays the names of the various conditions and the name of the reference condition. |
Trend MS Area pane | Displays the bar plots for the MS Area values for the component that you select in the Results table for each raw data file used in the experiment. |
MS Area value (y axis) | Displays the MS Area values from each of the individual raw data files assigned to a particular condition. |
Condition−Raw data file (x axis) | Displays the names of the various conditions and their assigned raw data files used in the experiment. |
Oligonucleotide Sequence Coverage pane | Displays the Fragment Coverage Map, including the oligonucleotide sequence information and the color-coded fragment ions. |
Oligo Sequence pane | Displays the oligonucleotide sequence assigned to the experiment, highlighting the nucleotide sequence corresponding to the component selected in the Results table. |
Full Scan Spectra pane | Displays the deconvoluted and full-scan spectra with mass and m/z information. |
Relative Abundance (y axis) | Displays the ratio of the abundance of a specific peak to the abundance of the peak with the highest abundance. |
Mass or m/z (x axis) | Displays the mass or mass-to-charge ratio of the ions formed from molecules. |
MS2 Spectra pane | Displays the predicted spectrum stacked on top of the experimental spectrum. |
Relative Abundance (y axis) | Displays the ratio of the abundance of a specific peak to the abundance of the peak with the highest abundance. |
m/z (x axis) | Displays the mass-to-charge ratio of ions formed from molecules. This ratio is the quantity formed by dividing the mass of an ion, in daltons, by the number of charges that the ion carries. |
Real Time Optimization pane | Displays the same parameters as those on the Parameters pages (in the processing method editing wizard), so that you can adjust these parameters and reprocess the experiment in real time. |