Table 1.
Control and Schizophrenia Cohort Demographics.
Table 2.
List of Taqman genes of interest.
Fig 1.
Hierarchical clustering of the NR genes, according to their expression.
Heatmap from hierarchal clustering of the NR genes in all samples (19 schizophrenia samples and 19 controls), produced using the heatmap.2 function of the gplots package in R. The samples (controls and schizophrenia) are on the x-axis and the genes are on the y-axis. The CPM values produced by edgeR were adjusted by firstly dividing by the gene length, they were then log2 transformed. The rows (gene names) are clustered and the genes re-ordered (Rowv = T, Colv = F, scale = “column”) resulting in 3 clusters (lowly expressed genes: red, moderately expressed genes: orange, highly expressed genes: yellow).
Table 3.
Significant differentially expressed genes in schizophrenia compared to controls (FDR < 0.1) from use of edgeR.
Fig 2.
Diagnostic difference of nuclear receptors and KLF4.
Graphs show the distribution of gene expression of a) KLF4 b) NR4A1 c) NR4A2 and d) RXRB normalized by the geomean of four housekeeper genes. Blue circles represent individual 37 control samples, and red circles represent the individual 37 schizophrenia samples, all showing mean and standard error of mean (SEM). * represents significance.
Table 4.
Results from RT-qPCR analysis.
Fig 3.
Percentage difference in expression of genes.
Overview of the percentage change of NR4A1, NR4A2, NR4A3, KLF4, RARA, RARB, RARG, RXRA, RXRB, and RXRG normalized expressions compared to controls. Red bars indicate the percentage decrease, green bars indicate the percentage increase, all showing standard error of mean (SEM). * represents significance.
Table 5.
Correlation of gene expression for nuclear receptors.
Fig 4.
Correlation with Lifetime Chloropromazine treatment.
Normalised expression of a) NR4A1 b) NR4A2 and c) NR4A3 correlated against the mean lifetime dosages of chloropromazine.
Fig 5.
Network map of genes transcriptionally regulated by the NR4A family and RXRB.
The Metacore database was used to generate lists of genes transcriptionally activated or inhibited by NR4A1, NR4A2, NR4A3, and RXRB as supported by experimental evidence. The interactions were mapped using Cytoscape. Black lines represent transcriptional activation, red lines represents transcriptional inhibition. The color of the node reflects the trend in expression change in schizophrenia, white (relative decrease in schizophrenia) and grey (relative increase in schizophrenia). It should be noted that these changes may not have reached statistical significance after multiple testing correction.