1B). A molecular concepts visualization of the gene sets that are indicative for the proliferation rate is shown in Supplementary Fig. 2. The downregulation of the cell cycle related gene sets indicates a major inhibiting effect of DON on the proliferation. These gene sets

include genes that are specifically upregulated during a particular cell cycle phase (Whitfield et al., 2002 and Bar-Joseph et al., 2008). Interestingly, genes upregulated during the G1–S phase of the cell cycle were upregulated after 3-h treatment with 5 μg/kg and particularly 10 μg/kg DON (Fig. 2A). This indicates that 10 mg/kg DON rapidly stimulates entry of cells into the G1–S phase of the cell cycle but inhibits cell division shortly thereafter. A heat map of the expression of the genes of the merged proliferation-related gene sets is given in Fig. 2B. Dabrafenib ic50 This figure (upper part of heat map at the left) shows that many of the cell cycle genes were temporarily Cyclopamine datasheet upregulated during the first 3 h. As shown in Fig. 3A, genes that are upregulated in T lymphocytes during the T cell activation response are also upregulated by DON. These gene sets include NFkB, CD40, Fos, and Jun (Supplementary Fig. 3), which are well-known for being induced by T cell activation (Gwack et al., 2007). In agreement with this, NFkB target genes and CD40 upregulated genes are also induced by DON (Fig. 3A). These T cell activation-related genes

were upregulated within 3 h. These genes remain highly upregulated after 24 h for the highest dose of DON but return within 24 h close to control levels for the lowest and middle dose

of DON (Fig. 3B). DON upregulated of many inflammatory response-related gene sets including chemokine activity, chemotaxis, inflammatory response, and acute phase response (Supplementary Fig. 4A). These gene sets contained many cytokine-related genes (Supplementary Fig. 4B). The upregulation of gene sets such as dendritic cells, monocytes, and polymorphonuclear leucocytes (Supplementary Fig. 5A and C) indicates an infiltration of blood cells Mannose-binding protein-associated serine protease with phagocytotic ability. One other cluster of gene sets upregulated by DON was related to cell adhesion and cytoskeleton (Supplementary Fig. 6A). The expression pattern over time of inflammatory response, blood cell infiltration, and cell adhesion–cytoskeleton genes was remarkable similar to that of the T cell activation-induced genes (Supplementary Figs. 4B, 5B, D and 6B). Genes highly expressed in either the very earliest precursor T lymphocytes stage (DN2) or the late precursor stages (CD4+ or CD8+) were upregulated by DON treatment, while genes highly expressed in early precursor cells of the double-positive stage (CD4+ and CD8+) were downregulated by DON (Supplementary Fig. 7A, B, and D). Genes highly expressed in early precursor stages DN3 and DN4 are upregulated at 3 h and downregulated at 6 and 24 h (Supplementary Fig. 7A and B).