Extended Data Fig. 5: Single nuclei ADPKD transcriptomic data.
a, Scaled gene expression of the top 3 differentially over-expressed genes (sorted by log2-fold-changes) in each cluster.b, Individual UMAP embeddings of nuclei from each of the 5 human kidney specimens.c, Number of genes, cell count and percentage of reads mapped to mitochondrial genes for each human sample. Box-whisker plots.d, Contribution of each sample toward the composition of the major cell types identified in human samples.e, Cell-type distribution was shown per condition and percentage of cells.f, Top 5 upregulated genes in human ADPKD vs donor biopsies.g, Heatmap of pathway activity using PROGENY comparing the integrated ADPKD kidney tissue data to the donor biopsies, indicating increased pathway activity in several cystic epithelial clusters as compared to their nephron counterparts in the healthy tissue. ***P< 0.001; **P< 0.01; *P< 0.05.P: AdjustedP-value by Benjamini & Hochberg method for multiple testing, from a nominalP-value obtained from an enrichment test with 10,000 permutations.h, Heatmap of gene-set enrichment of hallmark pathways of ADPKD comparing the integrated human ADPKD tissue data to the control data from donor biopsies. ***P< 0.001; **P<0.01; *P<0.05.P: AdjustedP-value by Benjamini & Hochberg method, two-tailed, from a nominalPvalue obtained from an enrichment test with 1,000 permutations.
