Extended Data Fig. 4: DVP applied to archival tissue of a rare salivary gland carcinoma.
From: Deep Visual Proteomics defines single-cell identity and heterogeneity
a, Immunohistochemical staining of normal salivary gland stained for the cell adhesion protein EpCAM. Supervised (random forest) ML was trained to identify acinar (green) and duct cells (turquoise). Scale bar = 20µm. b, Quantitative proteomic comparison between acinar and duct cells from tissue in A with known cell type specific markers highlighted (https://bit.ly/3iOK8Qf). c, Relative protein levels of selected pathways that were significantly higher in acinar or duct cells. d, Unsupervised hierarchical clustering of acinar and duct cell proteomes from two different patients together with acinar cell carcinoma cells. Note that normal acinar cells of two different tissues clustered together. Duct cells clustered furthest away. Prior to clustering, protein levels from different sample groups (duct cell tissue #1, acinar cell tissue #1, acinar cell tissue #2, carcinoma tissue #2) were averaged and z-scored. Bar on the left shows differentially expressed pathways from panel b with acini and duct specific proteins in green and turquoise, respectively.
