Supplementary Figure 4: Comparison of quantitative results for HSA and HSA pSer-82 using various normalization options in PIQED.
From: PIQED: automated identification and quantification of protein modifications from DIA-MS data
(A) Plot showing individual total site-level peak areas for the peptide TCVADEpSAENCDK containing phosphoserine pSer-82. (B) Protein-level areas computed with mapDIA using unmodified HSA peptides. (C) Site-level areas (from A) for the peptide TCVADEpSAENCDK containing phosphoserine pSer-82 corrected by the observed protein-level areas from (B). (D) Site-level areas for phosphoserine pSer-82 from the peptide in (A) corrected by local total ion chromatogram signal (TIC). (E) Site-level areas for phosphoserine pSer-82 from the peptide in (A) corrected by local total ion chromatogram signal (TIC) and by the protein-level area from (B). In all cases with or without normalizations, this phosphorylation site is determined to be statistically increased in urine from children diagnosed with UTI compared to the undiagnosed pain group.
