Extended Data Fig. 9: Large-scale scifi-RNA-seq profiling for a mixture of four human cell lines and for primary human T cells with and without TCR stimulation. | Nature Methods

Extended Data Fig. 9: Large-scale scifi-RNA-seq profiling for a mixture of four human cell lines and for primary human T cells with and without TCR stimulation.

From: Ultra-high-throughput single-cell RNA sequencing and perturbation screening with combinatorial fluidic indexing

Extended Data Fig. 9

a, Gene expression levels obtained with scifi-RNA-seq for a mixture of four human cell lines. The expression levels of 72 cell-line specific genes were mapped on top of the UMAP projection from Fig. 2j. b, UMAP projections for 62,558 single-cell transcriptomes of human primary T cells, with additional variables mapped on top of the projections: Donor ID, logarithm of UMIs per cell, logarithm of detected genes per cell, percent unique reads per cell, percent mitochondrial expression, and percent ribosomal expression. c, UMAP projection for the single-cell transcriptomes, with T cell receptor stimulation status mapped on top of the projection. d, Expression levels of four genes induced by TCR stimulation mapped on top of the UMAP projection. e, UMAP projection for the single-cell transcriptomes, with single cells colored according to the clusters assigned by graph-based clustering using the Leiden algorithm. f, Gene set enrichment analysis for the differentially expressed genes in each cluster.

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