Extended Data Fig. 8: Species-mixing, doublets and mappings statistics in Smart-seq3.
From: Single-cell RNA counting at allele and isoform resolution using Smart-seq3
(a) Scatter plot showing the number of reads that aligned to human (x-axis) and mouse (y-axis) for the complex HCA sample that contained both human, mouse and dog cells. (b) Scatter plot showing the number of reads that aligned to human (x-axis) and dog (y-axis) for the complex HCA sample that contained both human, mouse and dog cells. Few cells show any signal towards more than one genome, demonstrating a very low doublet rate. (c) Percentage of unmapped read pairs, and read pairs that aligned to exonic, intronic and intergenic regions. Separated per protocol (Smart-seq2 and Smart-seq3) and experiment (HEK293FT, Mouse Fibroblasts, HCA cells). (d) Mapping statistics for 5’UMI-containing read pairs in Smart-seq3. Percentage of unmapped read pairs, and read pairs that aligned to exonic, intronic and intergenic regions. Separated per experiment (HEK293FT, Mouse Fibroblasts, HCA cells). The boxplots shown in (c and d) show the median, first and third quartiles as a box, and the whiskers indicate the most extreme data point within 1.5 lengths of the box.
