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Total ratio vmohanty  2024-03-27 12:06
 

Hi All,

I get a dotp and total ratio next to my precursor for the peptide of interest. I am aware that closer the value of dotp to 1, good is the matching.

However, I want to know how much shall be the TOTAL Ratio mentioned after that. Is there any particular value, i have to look for?

How much should be the spike-in heavy standards be injected as compared to endogeneous peptides?
For example, for my endogenous peptide transition, the intensity is 6e3 and for the corresponding heavy transition is 2e6 (screenshot attached).

Thank you.
VM
 
 
Nick Shulman responded:  2024-03-27 12:12
There isn't a particular value of "Total Ratio" that you should be striving for.
The "Total Ratio" is the sum of the light transition peak areas divided by the sum of the heavy transition peak areas.
There are many places in Skyline where the word "total" means "sum of transitions associated with a particular precursor".

The "rdotp" is a measure of whether the ratio values for each of the individual light transition to its corresponding heavy transition are the same. A lower "rdotp" value means that removing certain transitions from the document could change the "Total Ratio" value.
-- Nick