Fig. 4

Genes show a wide range of isoform diversity. We generated an isoform-level transcriptome for each cell in our dataset and then analyzed the isoform diversity for different genes by merging these isoforms. A The correlation of the number of cells expressing an isoform for a gene and how many unique isoforms we identified for that gene using the “merged single cell” approach is shown as a scatter plot. B The correlation of the number of cells expressing an isoform for a gene and how many unique isoforms we identified for that gene using the synthetic bulk approach is shown as a scatterplot. C The correlation of the number of cells expressing an isoform for a gene and the ratio of the number of isoforms identified for that gene with the “merged single cell” and “synthetic bulk” approaches. Both number of cells and isoform ratio are shown as log₁₀. A–C Genes encoding ribosomal proteins and HLA proteins are shown in red and blue, respectively. D Genome Browser shots HLA genes are shown. Genome annotation is shown on top, isoforms determined by the synthetic bulk approach in the middle, and isoforms determined by the merged single-cell approach at the bottom (“top strand” = blue, “bottom strand” = yellow). A number of reads (synthetic bulk) or cells (merged single cells) associated with an isoform are shown on the right