How to export identified peptides & proteins from a context
How to access this feature
Select the context of your choice (for a User context, protein grouping should have been executed) in the MSI Explorer window
Click on the menu
MS Identification > Context > Export > Reports
Select one of the five reports from the droplist (in the First Step Panel of the Assistant):
Protein groups summary: reports the complete list of protein groups and give predefined properties for each group
Protein groups details: reports a detailled description of all protein groups contained in the selected context
Same Subset details: reports a detailled description of all sameset proteins and subset proteins for each protein group
Peptide details: reports a detailled description of all peptides
Context customizable summary: reports the complete list of protein groups specifying which properties to display
If you selected the “Context customizable summary” report, you have to fill in the second step panel “Customize Report” (see next section below for details). Click
In the last panel “Generate Output”, select your output format (.xls, .pdf or .html) and your destination file.
"Protein groups summary" Report
"Protein groups details" Report
This report displays the same information as the “protein groups summary” report but also displays, for each group, the list of identified peptides.
"Same Subset details" Report
"Peptide details" Report
All PTMs are in one cell (use Tools→Text to columns and specifiy ';' as a separator to put one PTM per cell).
All proteins are in one cell (use Tools→Text to columns and specifiy ';' as a separator to put one protein per cell).
"Context customizable summary (Protein Groups)" Report
For this report, a second step is necessary to select the properties to display in the final report.
The available property list may include user generated properties such as spectral count.