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Fig. 4 | BMC Biology

Fig. 4

From: Genome annotation with long RNA reads reveals new patterns of gene expression and improves single-cell analyses in an ant brain

Fig. 4

Iso-Seq assemblies improve single-cell sequencing analysis. A % of single-cell RNA-seq reads mapped to exons in HSAL50 vs. HSAL51. P value is from a paired Student’s t test. B UMI counts per gene in HSAL50 vs. HSAL51. Each dot is a gene. Genes of interest for subsequent analyses are highlighted. C Number of cells (left), mean number of UMI (center), and mean number of genes (right) using HSAL50 and HSAL51 annotations. D UMAP visualization of single-cell transcriptomes analyzed with HSAL50 or HSAL51 annotations. E, F Heatmaps showing normalized UMI counts for VAChT, VGlut1, and Gad1 (E) or toy and GluRIB (F) in HSAL50 and HSAL51 analyses. Pie graphs in E indicate the % of cells with observed expression (> 0 UMI) of the gene. G Heatmaps showing CG9259 (left) and graph showing the % of UMIs mapping to CG9259 in each cluster (right), in HSAL50 and HSAL51 annotations. H Violin plots for normalized UMIs for CycG in each cluster in HSAL50 and HSAL51 analyses, comparing cells in gamergate vs. worker brains. *, adjusted P value < 0.05 by Wilcoxon-rank sum test with Bonferroni correction. All single-cell data were reanalyzed from [22]

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