Fig. 7
From: Single-cell transcriptome conservation in cryopreserved cells and tissues
Comparative analyses of single-cell transcriptome data from fresh (red) and cryopreserved (blue) patient-derived orthotopic ovarian tumor xenograft cells. a, b Comparative analysis of the number of sequencing reads and detected transcripts (a) or genes (b) using a linear model. The slope of the regression line was calculated separately for fresh and cryopreserved cells. c Gene expression variances displayed as t-SNE representation using the 100 most variable genes. d Linear regression model comparing average gene expression levels of expressed genes. The coefficient of determination (r2) is indicated. e Hierarchical clustering of single cells based on transcriptional programs (defined by Gene Ontology) and correlating gene sets [21]. Transcriptional programs and gene clusters are summarized in aspects. Displayed are the most variable aspects (rows) and their importance (row colors). Cells are assigned to condition (fresh: red; cryopreserved: blue) and clusters. f A t-SNE representation of similarities between cells using distances and cluster identities (as in e). Conditions are indicated (fresh: circle; cryopreserved: triangle). g, h Hierarchical clustering of single cells (as in e). Displayed are the expression levels of the 25 most variable ribosomal genes (g) and genes implicated in cell cycle (G2/M checkpoint, h). Gene set expression levels are summarized (first panel: high: orange; low: green) and cells are assigned to condition (second panel: fresh: red; cryopreserved: blue) and clusters