Protein abundances matrix

Protein abundance was then estimated using a traditional label-free, intensity-based absolute quantification (iBAQ) algorithm, which divided the protein abundance (derived from intensities of the identified peptides) by the number of theoretically observable peptides. Fraction of total (FOT) is a relative quantification value defined as a protein’s iBAQ divided by the sum of the iBAQ of all proteins identified in an experiment, calculated as the normalized abundance of a particular protein in the experiment. Finally, for the ease of presentation, the FOT was further multiplied by 1e5.