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Fig. 7 | Genome Biology

Fig. 7

From: Quartz-Seq2: a high-throughput single-cell RNA-sequencing method that effectively uses limited sequence reads

Fig. 7

Quartz-Seq2 analysis of stromal vascular fraction (SVF) from mouse adipose tissue. a Morphology of SVF cells. Adipose tissue from a cell suspension of SVF was prepared. Upper panels present a photograph of adipose tissues and dissociated SVF samples. Yellow scale bar represents 1 cm. White scale bar represents 10 μm. Lower panels represent the distribution of cell size information with different platforms (left, diameter of cell size using photography; right, flow cytometry information using a cell sorter). The diameter of cell size for SVF samples was 6.43 ± 1.35 μm (n = 200). b Clustering of cells included in SVF. The transcriptome of approximately 1000 cells was quantified by Quartz-Seq2 and clustering on t-SNE space was performed. In accordance with the genes and functional terms enriched in each cluster, the cell type was annotated. The percentage indicates the proportion of cells for each cluster relative to all cells analyzed. Numbers in parentheses indicate the numbers of cells constituting the cluster. c Marker genes for each cluster were identified by Quartz-Seq2. Cluster-specific or cluster-enriched genes were calculated for each cluster, with their expression being displayed as color in a heatmap. No more than 50 cells are shown for simplicity. d The results of Gene Ontology (GO)-PCA analysis. Functional terms enriched in the genes with high factor loadings of PCA were calculated and the enrichment is displayed as color in the heatmap. No more than 50 cells are shown for simplicity. e Reactome pathway with genes differentially expressed between cluster 1 and cluster 8

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