Figure 2

An example of a PhosFox report. The report contains: the protein accession number (id), the protein name and description, the peptide sequence with the modified amino acid(s) underlined, and the position of the modifications on the protein sequence, as well as further information whether the modification is novel (marked as bold). The following columns indicate in which sample(s) and by which search algorithm (in this example Paragon and Mascot) the peptide has been identified and whether it is unique to case or control. Additionally, the text color coding in the rows indicates whether the modified peptide is unique to case (red) or control (blue) or whether it is found in both case and control (black). The numbers of modified amino acids on the peptides are also listed in the output report. S = serine, T = threonine, Y = tyrosine, K = lysine.