I quantified creatine kinase protein in two different samples then I got a bar graph shows a higher number of relative protein abundance in Sample 1 compared to sample 2.
My question what this relative protein(a.u) abundance number mean?
and how it's calculated in a MaxLFQ algorithm (does these a sum of intensities of all identified peptides from this protein)?
Hi Eric,
in short, the quantitative value that MAxQuant uses ist the peak area of the elution profile of a peptide. This value has no unit. MaxQuant sums up all these values for each peptide resulting in the relative abundance of a protein. Relative in that case means that it is not an absolute value, meaning it won´t tell you copy numbers or the concentration For absolute quantitation you need a standard where you know the concentration of your peptide which is proportional to the intensity.
Hopefully this is helpful,
cheers
Sebastian
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