The column that you should use is "Normalized Area".
It's under:
Proteins > Peptides > Peptide Results > Quantification
The Normalized Area is the are for the peptide, normalized according to whatever you may have specified at:
Settings > Peptide Settings > Quantification > Normalization Method
If you haven't specified a normalization method there, then the Normalized Area of a peptide is just the sum of the areas of all of its individual transitions across all of its precursors. |
Hi Nick,
I have exported the peptide intensities and I want to see the protein intensities. Is it simply the sum of intensities/areas of all of the protein's individual peptides? Can I export them directly from Skyline report form, if yes, which column should I use?
Thanks in advance.
Best,
Zainab |