Fig. 27

Example standardized litre plots for genes that were removed from kidney-specific DEGs after TMM normalization. Standardized litre plots for the nine genes with the lowest FDR values out of the 529 genes that were in the first cluster (Fig. 19) of genes that no longer remained as kidney-specific DEGs after TMM normalization. We verify from an additional perspective that the red genes do not demonstrate the expected patterns of DEGs. The example red genes here are show much larger inconsistencies between replicates than what we saw with the purple (Fig. 25) and orange (Fig. 26) genes. This provides additional evidence that TMM normalization removing these genes from DEG status may be valid