Identification of genes associated with a gain of prion susceptibility Increased susceptibilities of revertant cell clones R2, R5 and R7 after retinoic acid (RA) treatment, replotted from Supplementary Table S4 for clarity. Identification of genes associated with a gain of prion susceptibility Increased susceptibilities of revertant cell clones R2, R5 and R7 after retinoic acid (RA) treatment, replotted from Supplementary Table S4 for clarity. A Venn diagram shows the relation between gene candidates derived from two independent microarray studies. The number of genes differentially expressed between susceptible and revertant clones (sus versus rev, Microarray 1) and revertant R7 cells in absence and presence of RA (RA versus vehicle, Microarray 2) is shown. The intersection in red represents 18 genes that are common to both gene candidate lists. Gene expression values of 18 putative prion susceptibility genes are shown. Fold expression changes (FC) of differentially expressed genes between susceptible and revertant cells and between mock‐ and RA‐treated revertant R7 cells are shown for microarray (FDR < 0.01) and qPCR analysis, respectively, and ranked according to their FC values on microarray. The statistical significance of gene expression differences by qPCR are presented as discrete P‐values (Student's t‐test). Genes expressed in revertant and susceptible cells are represented as positive and negative FC values, respectively. Genes downregulated and upregulated upon RA treatment are presented as negative and positive FC values, respectively. Masue M Marbiah et al. EMBO J. 2014;33:1527-1547 © as stated in the article, figure or figure legend