Additional file 4 of Reference genome and transcriptome informed by the sex chromosome complement of the sample increase ability to detect sex differences in gene expression from RNA-Seq data

Additional file 4: Genetic sex of RNA-Seq samples per tissue. Gene expression log2(CPM + 0.25/L) for select XY homologous genes (DDX3X/Y, PCDH11X/Y, USP9X/Y, ZFX/Y, UTX/Y) and XIST and SRY when reads were aligned to a default reference genome A), and for B) when reads were aligned to a sex chromosome complement informed reference using HISAT and C) and D), for when the reads were aligned using STAR. Male XY whole blood, brain cortex, breast, liver, and thyroid samples are shown in blue squares and female XX in orange circles.