Modulation by decitabine of gene expression and growth of osteosarcoma U2OS cells in vitro and in xenografts: Identification of apoptotic genes as targets for demethylation

Table 1 Genes up-regulated (p < 0.0025 and ≥2 fold-change) after decitabine treatment identified using AffyChip.

Gene Symbol	Fold Change (Affy)	Fold Change (Real-Time)	CpG	known or proposed function
FAM65A	2.76	nd	yes	hypothetical protein LOC79567
GADD45A	2.58	6	yes	Regulation of cyclin dependent protein kinase activity and DNA repair
GAGE4	3.51	nd	yes	Unknown
HSPA9B	2.32	5.3	yes	Implicated in the control of cell proliferation and cellular aging
IGFBP6	2.22	3	yes	Insulin-like growth factor binding protein involved in negative regulation of cell proliferation
IMP-3	8.36	nd	yes	Binds to insulin-like growth factor II leader 3 mRNA and may repress its translation during late development
NFKBIA	4.01	4.2	yes	Inhibits NF-k-B and involved in cell adhesion, apoptosis, differentiation and growth
PAWR	3.30	10	yes	Pro-apoptotic protein acts by down-regulating the anti-apoptotic protein BCL2 via its interaction with WT1
PDCD5	4.15	8	yes	Induction of programmed cell death
PSG5	2.32	nd	no	Synthesized by syncitiotrophoblast of the placenta and has a role in maintenance of gestation
RAC2	5.09	nd	no	Involved in the regulation of the NADPH oxidase
TGM2	2.01	nd	yes	A peptide cross-linking factor
TNFAIP3	3.44	4.5	yes	Negative regulation of I-k-B kinase/NF-k-B cascade

Fold change (Affy) is the Mean from a duplicate AffyChip experiments. The fold change using real-time PCR (TaqMan method) is the Mean values from the same RNA from the same yields that were used for the AffyChip experiments and a third replica. The direction of expression was consistent in the Affy experiment and the real-time experiment for the tested genes. 11 out of 13 genes have CpG-island in there 5' region. Genes in bold characters are those identified in the apoptotic pathway as explained in "Methods" and "Results". The genes are listed in alphabetical order.

ISSN: 1475-2867