Fig. 2: Transcriptome analysis of unsorted ovarian cells.

Ovarian cortical cells from GRP and C-sec patients were sequenced on a single-cell level and integrated with ovarian medulla cells. a After quality control and filtration, 5715 GRP cells (black) and 6445 C-sec cells (grey) were further analyzed. Non-hierarchical cluster analysis revealed six main clusters, and both GRP and C-sec cells contributed to all clusters to a similar extent. b Main cell cluster identities were identified with the help of gene expression analysis. c Heatmap showing enriched genes per cluster. Clusters were downsampled to max. 300 cells per cluster for better visualization. d The color-coded violin plots show the expression scores of signature genes. e UMAP of merged scRNA-seq data of our unsorted ovarian cortex cells (grey) and the publicly available scRNA-seq data set of antral follicles and pieces of stroma picked from ovarian medulla (colored cells)²¹. Previous cluster annotations of both data sets are maintained²¹. f Same UMAP as in e, showing the contribution of our cortex cells (colored) to previously reported ovarian medulla clusters (grey). All identified cortical cell clusters joined the medullary cell clusters except from the oocytes that were unique to the cortex data set. The horizontal bars in violin plots indicate median gene expression per cluster. C-sec Cesarean section patient, CL cluster, G granulosa, GRP gender reassignment patient, I immune, TC theca cell, O oocytes, UMAP uniform manifold approximation and projection.