Extended Data Fig. 6: Transcriptomic analysis of WT, gte2/7 and cdkl9 mutants under normal and heat conditions.

a. Principal component analysis (PCA) of RNA-seq data in WT, gte2/7 and cdkl9 under normal condition. b. Volcano plots showing differentially expressed genes in gte2/7 or cdkl9 compared with WT under normal condition. P values are calculated using two-tailed Wald tests under negative binomial generalized linear models, with 95% confidence intervals derived from normal approximation. c. Principal component analysis (PCA) of RNA-seq data in WT, gte2/7 and cdkl9 under heat condition. d. Volcano plots showing differentially expressed genes in gte2/7 or cdkl9 compared with WT under heat condition. P values are calculated using two-tailed Wald tests under negative binomial generalized linear models, with 95% confidence intervals derived from normal approximation. e. Expression levels of the 95 genes overlapped (Fig. 4c) in WT, gte2/7 and cdkl9 under normal and heat condition. P values were calculated by two-tailed Student’s t test. Each plotting panel, from left to right, displays the frequency distribution of the data, the boxplot, and the raw data points. In the boxplot, the central horizontal line within the box represents the median of the data. The upper edge of the box corresponds to the upper quartile, while the lower edge indicates the lower quartile. The whiskers extend to the minimum and maximum values within 1.5 times the interquartile range.