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. 2018 Aug 30;11(6):1307–1322. doi: 10.1016/j.tranon.2018.08.001

Figure 2.

Figure 2

Proteome profiling of PDAC patients. (A) Bar graph showing the number of proteins quantified in each patient sample. A total of 1878 proteins were quantified in the 12 patient samples. (B) The distribution and mean log 2 LFQ intensities (horizontal line) of quantified proteins in each patient. (C) Volcano plot showing the altered proteins in the PDAC patient cohort. Moderated t-test p-values were plotted against the mean protein fold changes per group. Data points in blue show the proteins overexpressed in short PFS group and those in red show the proteins overexpressed in prolonged PFS cohort. (D) Immunohistochemical corroboration of ALDH1A using representative tissues of the short PFS and prolonged PFS groups. The immunohistochemical staining shows clear differences in the expression of ALDH1A1 with more expression observed in the short PFS group than in the prolonged PFS group. Representative images were taken at x400 magnification. Sufficient material for immunohistochemical staining was available for only 10 of the 12 samples. (E) STRING analysis of proteins overexpressed in the early recurrence cohort based on P < .05 from LIMMA analysis show an enrichment in actin cytoskeleton proteins, oxidoreductases, and dehydrogenases. Connections show confidence (line thickness indicating the overall strength of data supports) and are based on categories “Co-expression”, “Co-occurrence”, “Databases”, “Experiments”, “Gene Fusion”, “Neighborhood”, and “Textmining” at a medium confidence interval of 0.4. MAOA does not appear in this figure because it is part of the 14 other proteins/nodes that were not connected to any other protein following STRING analysis. For the purpose of this analysis, we show connected proteins/nodes only that define the two distinct protein groups. (F) Heat map comparison of proteins expressed in at least 50% of patients in one group (short PFS) but absent in the other group. This comparison reveals a predominant exocrine-like fingerprint in 3 out of 6 patients in the short PFS cohort (E1, E2, and E6). The scale represents the log 2 values of LFQ intensities of the quantified proteins.