Figure 3.

Proteomic profiling of primary mammary epithelial cells sorted by mitochondrial potential

(A) Schematic of experimental design and FACS gating scheme used to sort subsets of mammary epithelial cells of basal and luminal compartments based on their mitochondrial potential as marked by MTR dye (n = 6 each) that were subsequently processed using DROPPS.

(B) Differences in log₂(intensities) of proteins from the total basal and total luminal populations. Points are colored by significance, and known compartment markers are labeled.

(C) Overlap in proteins detected between select subsets of epithelial cells.

(D) 2D bin plot depicting the distribution of log₂ fold changes between MTR^high and MTR^low for the basal and luminal compartments. Spearman correlation and associated p value are shown.

(E) Select gene set enrichment analysis (GSEA)-enriched pathways in the MTR^high population compared to the total population for the basal and luminal compartments.

(F) Rank plot depicting the distribution of GenieScores for proteins with surface prediction consensus >0 calculated using SurfaceGenie²⁶ on mean log₂(intensities).

(G) Representative scatterplot depicting the relationship between CD36 and MTR fluorescent intensity.

(H) Representative histograms depicting the distribution of CD36 flow cytometry signal in MTR^low, total, and MTR^high basal populations.

(I) The percentage of CD36^high cells in different MTR fractions of basal cells shown with paired t test p values (n = 8).

Boxplots show the median, interquartile ranges, and 95% confidence interval estimate. MTR, MitoTracker Red.

See also Figure S3 and Tables S1, S2, S4, and S5.