Skip to main content
Fig. 5 | Genome Biology

Fig. 5

From: Single-cell analysis of CD4+ T-cell differentiation reveals three major cell states and progressive acceleration of proliferation

Fig. 5

Model validation in vitro and in vivo. a Cell culture expression time course: correlations of gene expression levels (logRPKM) between the model prediction and measured data at 6, 18, 24, 48 and 84 h. The colour scale represents the density of transcripts as a percentage of all expressed genes. b Pearson correlation between model-predicted expression values (thick light blue line) and generation profiles (thin lines, grey for G0N, red for G2N, orange for G4N and green for G4P). c For each of the states, the linear regression of the median values (Z-score normalized) is visualized as a red line for the time-course data and as a blue line for the predicted ones. Errors were calculated using data from different RNA-seq replicates. d Overview of splenic Th cells isolated from PcAS PbTII-infected mice at 2, 3 and 4 days post-infection. e Cumulative expression levels of cell cycle-associated genes (Cyclebase) and Th1 signature genes [23] in single CD4+ T cells as TPM (transcripts per millions). Cells from different days are plotted with different colours. The p value was calculated using the cor.test function in R, based on the Spearman’s product moment correlation coefficient. f The cumulative expression of 251 cell cycle-associated genes as TPM (Cyclebase database) in Ifng high cells and in cells expressing low levels of or no Ifng. The p value was calculated using a Wilcoxon rank sum test

Back to article page