PMC

Cartoon illustration. Description and cartoon illustration of the datasets modeled. See Materials and Methods for a detailed explanation of each set.

Hierarchical clustering of gene and exon expression. A) Mouse clustering (agglomerative clustering) based on gene expression profiling. B) Mouse clustering (agglomerative clustering) based on exon expression profiling.

Principal component analysis of whole-transcript gene expression. Principal component analysis using the whole-transcript gene expression values that are differentially expressed between sexes.

Comparison of 3' gene expression profiling, whole-transcript gene expression profiling and exon expression profiling. Venn diagram illustrating the overlap between genes identified using 3' gene expression profiling, whole-transcript gene expression profiling and genes associated with an exon identified using exon expression profiling for strain- and sex-bias expression.

Genes showing both strain- and sex-biased effects. Venn diagrams showing A) the overlap between exons showing strain effects and those with sex effects and B) the overlap between genes with differentially expressed exons showing strain effects and those with sex effects. For the diagram shown in (B), we restrict the analysis to genes that utilizes different exons for strain- and sex-bias expression (see text).

Examples of differentially expressed genes and splice forms. Box plots of the mean log ratio obtained from multiple probes in each strain-sex group for a single gene. The solid horizontal line across the length of the graph represents the average gene expression. The two dashed horizontal lines mark plus and minus two standard deviations from the average gene expression, respectively. For the boxes, from bottom to top, the solid horizontal lines represent the minimum mean log₁₀ expression ratios excluding outliers, the lower quartile, the median, the upper quartile and the maximum mean log₁₀ expression ratios excluding outliers. The dashed vertical lines represent the range of mean log₁₀ expression ratios excluding outliers. Outliers are defined as any data-points having values extending beyond 1.5 times the interquartile range from either ends of the box. A) Box plots of 2310008M10Rik showing strain effect (p-value < 1 × 10^-16); B) Box plot of adh4 showing sex effect (p-value < 1 × 10^-16). C) Boxplots of rhoQ, exon 4 showing strain effect (p-value < 1 × 10^-16); D) Boxplots of pitpnm1, exon 21 showing sex effect (p-value < 1 × 10^-16)