Fig 5. Cross-genotype co-expression analysis.
A. Transcripts that differed significantly between control and rpS12D97/D97 wing discs showed little overlap with those affected in RpS3+/- and RpS17+/- wing discs. B) Transcripts dependent on RpS12 in both Rp+/- and Rp+/+ wing discs showed little overlap with those affected in both RpS3+/- and RpS17+/- wing discs. C) Transcripts that differed significantly between control and Xrp1+/- wing discs showed little overlap with those affected in RpS3+/- and RpS17+/- wing discs. D) Transcripts dependent on Xrp1 in both Rp+/- and Rp+/+ wing discs showed little overlap with those affected in both RpS3+/- and RpS17+/- wing discs. E) RpS12- and Xrp1-dependent transcripts showed little overlap. F) Hierarchical clustering of wing disc samples by their similarities (as Pearson correlation coefficients) in gene expression profiles distinguished samples by genotypes. The Xrp1+/- replicates grouped with wild type controls. G) Co-expressed and similarly-regulated genes (module #2) whose expression was altered in RpS3+/- and RpS17+/- wing discs in an RpS12-dependent, Xrp1-dependent manner. H) Co-expressed and similarly-regulated genes (module #8) whose expression was altered in RpS3+/- and RpS17+/- wing discs in an RpS12-independent, Xrp1-independent manner. I) Co-expressed and similarly-regulated genes (module #6) whose expression was altered in an RpS12-dependent manner regardless of RpS3 genotype. In G-I, the columns in the heatmaps are genes and the rows are samples (3 replicates each as indicated); color scale indicates relative expression across samples. J) Genes in the Module 6 that were downregulated in rpS12D97 genotypes and present in the GO term ‘secretion’. Their fold changes (from DESeq2) are shown here. Bold values were statistically significant (Padj < 0.05). Neither Module 6 genes that were upregulated in rpS12D97 genotypes, not Module 6 as a whole, was enriched for any particular GO terms.