Figure 2.

Changes in the phosphoproteome of 3D PDAC cell cultures by proton and photon irradiation. (A) Experimental set-up of phosphoproteome analysis; Alterations in phosphorylation sites upon irradiation are categorized into three ranges: (i) ≥30% decrease, (ii) ≥50% increase, (iii) ≤30% decrease + ≤50% increase. The latter is defined as ‘no change’ (see Tables S3 and S4). Data falling into the categories (i) and (ii) are plotted as (B) heatmaps and (C) waterfall blots after normalization to unirradiated controls (n = 1); (D) Percentage of phospho-sites among all detected 584 phospho-sites showing ≥30% decrease or ≥50% increase in phosphorylation after irradiation in indicated cell lines; (E) Venn diagram analysis indicating overlapping and specific alterations in phospho-sites after photon or proton irradiation; (F) Venn diagram analysis comparing proteins altered by ≥50% increase in phosphorylation of Colo357 and MiaPaCa-2 cell lines, either specifically after photons and protons or by both kinds of irradiation.