Extended Data Fig. 10: HCA cluster markers, donor details and additional information on isoform assignments. | Nature Biotechnology

Extended Data Fig. 10: HCA cluster markers, donor details and additional information on isoform assignments.

From: Single-cell RNA counting at allele and isoform resolution using Smart-seq3

Extended Data Fig. 10

(a) Violin plots showing the distribution of expression for genes across all cell type clusters revealed in Figure 3d (total number of cells n = 3,129). Genes were selected to inform on overall types of cells and known sub-type markers. (b) UMAP of HCA sample cells (n = 3,129) with Smart-seq3 (as in Figure 3d) but colored according to donors. (c) Matrix showing the fraction of reconstructed molecules that could be assigned to either one or N number of isoforms, where molecules were first grouped by the number of annotated isoform available for its genes. (d) Boxplots showing the number of molecules per cell (Smart-seq3 n = 3,129 cells, 10x v3 n = 6,175 cells) with unique assignments in Smart-seq3 and 10x Genomics (v3) for genes with more than one annotated isoform in Ensembl. Boxes indicate first and third quartiles with the median marked in white. Whiskers indicate the most extreme data point within 1.5 lengths of the box.

Back to article page