Fig. 3: Developmental transcriptome of Bombyx mori.

a Heatmap of average transcript abundance (mean log₂(CPM + 1) values of the 5064 most variable transcripts (transcripts within the upper 30th percentile of transcript-specific variability, measured by interquartile range (IQR) across timepoints)). b Scatter plot of the first two principal components of the dataset shown in (a). Biological replicates are depicted in the same color, with elliptical areas representing the standard deviation between replicates. c Heatmap of normalized transcript abundance (z-score of mean CPM values) of the 6448 most variable transcripts (transcripts within the upper 90th percentile of transcript-specific variability, measured by IQR across timepoints) corresponding to stage-specific clusters (egg = 4342 transcripts, larva = 939 transcripts, pupa = 144 transcripts and adult = 1023 transcripts). d Transcript expression profiles of individual stage-specific clusters generated by unsupervised SOM clustering plotted as the cluster-wise median z-score normalized mean CPM values. Box plots show the expression distribution of transcripts cluster-wise; the black dot represents the median and box edges represent the IQR. e Gene Ontology (GO) term and Pfam domain enrichment for the transcripts associated with the stage-specific clusters (Fisher’s exact test, FDR <0.05). Each circle represents a GO term or Pfam domain, with the color corresponding to the −log₁₀(FDR) and the size representing the number of transcripts associated with the respective category. The top five most significantly enriched terms per stage are depicted (all terms in Supplementary Data S7). All data is based on n = 5 biological replicates, except for L10, L17, L24, and L31, for which n = 4.