Fig. 2

Gene expression profiles across pathologically distinct ROIs within each subtype of fibrosing ILDs. (a) PCA plot of ROIs in IPF grouped by annotation. (b) Volcano plots showing up (red) or downregulated (blue) genes for indicated comparisons between annotations in IPF. (c) PCA plot of ROIs in NSIP grouped by annotation. (d) Volcano plots showing up (red) or downregulated (blue) genes for indicated comparisons between annotations in NSIP. (e) PCA plot of ROIs in CHP grouped by annotation. (f) Volcano plots showing up (red) or downregulated (blue) genes for indicated comparisons between annotations in CHP. (g) GO “biological process” gene sets (y axis) that are overrepresented by significantly upregulated genes in indicated comparisons (x axis). Top horizontal labels indicate which condition a comparison belongs to. (h) GO “biological process” gene sets (y axis) that are overrepresented by significantly downregulated genes in indicated comparisons (x axis). Top horizontal labels indicate which condition a comparison belongs to. (b), (d), (e): horizontal and vertical dotted lines indicate log₂ fold change of 1 and adjusted P value of 0.05, respectively. f.foci: fibroblastic foci. peripheral f: peripheral fibrosis. central f: central fibrosis. Inflam.: inflammatory.