Supplementary Data for: The Transcription Factor TCF21 is Necessary for Adoption of Cell Fates by Foxd1+ Stromal Progenitors during Kidney Development

Supplementary Materials

Supplementary Figure Legends

Supplementary Methods

Suppl Fig. S1: Flow cytometry analysis of single-cell suspensions from E14.5 mouse kidneys for scRNA-seq

Suppl Fig. S2: Single-cell RNA-seq analysis of Foxd1GFP+ sorted cells from control and Tcf21-cKO kidneys

Suppl Fig. S3: Single-cell RNA-seq analysis of stromal cells

Suppl Fig. S4: Stromal subpopulation markers for module scores

Suppl Fig. S5: Comparison of stromal cells between Tcf21-cKO and controls

Suppl Fig. S6: Elbow plot, cluster tree, and proportion graph by sex for stromal clusters

Suppl Fig. S7: Stromal Endomucin+ cells in E18.5 Tcf21-cKO kidneys

Suppl Fig. S8: Single-cell RNA-seq analysis of E18.5 control and Tcf21-cKO kidneys

Suppl Fig. S9: Lineage annotation of single-cell ATAC-seq analysis at E14.5

Suppl Table S1: E14.5 scRNA-seq a. All cluster markers.  b. Cell type markers

Suppl Table S2: E14.5 scRNA-seq a. Stromal subpopulation markers. b. Marker overlap with Combes et al

Suppl Table S3: E14.5 scRNA-seq a. Downsampled cell numbers by stromal cluster by sample b. Differential gene expression output c. GO term output up-regulated d. GO term output down-regulated

Suppl Table S4: a. Monocle module genes. b. Number of cells expressing modules

Suppl Table S5: E18.5 scRNA-seq a. All cluster markers b. Stromal subpopulation markers c. Emcn+ mutant markers

Suppl Table S6: Matrisome associated gene module

Suppl Table S7: E14.5 scATAC-seq a. Stromal subpopulation markers based on gene activity scores

Suppl Table S8: E18.5 bulk RNA-seq a. DEGs (Tcf21-cKO vs Control) b. GO Term up-regulated c. GO Term down-regulated

Suppl Table S9: Significant ligand-receptor interactions from CellChat