Results of RNA expression profiling reveal cell type dependent target genes of HOTAIR. (a) Venn diagram for differentially expressed genes in VM-CUB1_HOTAIR 20 and 5637_HOTAIR 4 cells when compared to the respective vector controls. Three independent RNA preparations of each clone were hybridized to Affymetrix PrimeView 3′IVT arrays. Differentially expressed genes with a significance of p < 0.01 (Benjamini-Hochberg adjusted) were selected. (b) Genes with at least two-fold overexpression in VM-CUB1 and 5637 (p < 0.01) were subjected to GO analysis using DAVID analysis software. GO biological process terms significantly enriched at p < 0.05 after adjustment were considered; the list was edited for multiple similar terms. (c) Changes in HOX gene expression pattern in stably transfected VM-CUB1 and 5637 cells (p < 0.01) displayed as a heatmap. Downregulated genes are indicated by light grey boxes, upregulated genes by dark grey boxes. HOX genes not significantly changed are shown in white.