Extended Data Fig. 3: Gene expression analysis of adult virgin mammary DCs and MØs.
From: Tissue-resident ductal macrophages survey the mammary epithelium and facilitate tissue remodelling
a, Top 50 positive SM signature genes. Heatmap shows mean-centred log2-expression with genes ranked by average FDR across pairwise comparisons (see Methods for a–i) (n=2 samples per population, each pooled from 12 mice, applies to a–f). b, Top 50 positive DC1 signature genes. c, Top 50 positive DC2 signature genes. d, DE genes between DMs versus SMs. Left heatmap shows most significant genes upregulated in DMs, right shows most significant down-regulated genes. e, Heat map showing relative expression of genes previously associated with MØs4 in the mammary DC/MØ populations. f, Heat map showing relative expression of genes previously associated with DCs32 in the mammary DC/MØ populations. g, GFP MFI from FACS analysis of Cx3cr1GFP/+ mice relative to wild-type (WT) controls (Fig. 2f) (n=2 mice). h, Barcode enrichment plots showing that genes associated with MHCIIloLyve1hi lung MØs26 are enriched in mammary MØ1/2 (roast p = 4e-5) whereas genes associated with MHCIIhiLyve1lo lung MØs26 are enriched in DMs (roast p = 5e-5). Genes are ordered in the plot right to left from most up- to most down-regulated in DMs versus SMs (Fig. 2). The x axis shows moderated t-statistics. Vertical bars designate MHCIIloLyve1hi or MHCIIhiLyve1lo lung MØ genes and the worms show relative enrichment. i, Epithelial and MØ expression of known receptor-ligand interactions for genes specifically associated with DMs or MØs. Epithelial gene expression data are from Sheridan et al., 201565. Lum, luminal; Prog, progenitor.
