Fig. 2

A comprehensive single-cell transcriptome atlas of mouse spermatogenesis. a Pearson correlation coefficient of all filtered spermatogenic cells between 20 developmental stages. The color key indicates the value of Pearson correlation coefficient from low (blue) to high (red). b Boxplots showing the gene number (left panel) and normalized UMI number (right panel) of known protein-coding genes expressed in each individual cell at different stages. Each boxplot represents the median, the first quartiles and the third quartiles of gene expression value; and the whiskers represent 1.5 times the interquartile range. The dots represent the outliers. c Bar plots showing the stage-specific representative gene expression based on RNA-seq analysis throughout 20 developmental stages. Error bar represents mean ± SEM. Scales of each gene expression are independent of each other. d Boxplots showing the gene numbers expressed in Spo11^−/− and wild-type (WT) control mice of leptotene stage based on single-cell RNA-seq. The P value is calculated by two-tailed Student’s t-test. e Boxplots showing the normalized UMI numbers expressed in Spo11^−/− and WT control mice of leptotene stage based on single-cell RNA-seq. The P value is calculated by two-tailed Student’s t-test. f Boxplots showing the numbers (left panel) and the normalized UMI numbers (right panel) of lncRNAs on autosomes expressed in each individual cell at 20 developmental stages. g Boxplots showing the numbers (left panel) and normalized UMI numbers (right panel) of lncRNAs on sex chromosomes expressed in each individual cell at 20 developmental stages