Gene expression in TGFbeta-induced epithelial cell differentiation in a three-dimensional intestinal epithelial cell differentiation model

Table 4 Microarray data and LightCycler RT-PCR mRNA levels as ratios of VRK2, GM2A, CRYAB, TAGLN, DRPLA, DIO2, PSMB, ROK1, PLCG and KRT19.

Gene ontology class	name	GenBank no	microarray TGFβ-treated vs. control		RT-PCR TGFβ-treated vs. control		microarray IMR-treated vs. control		RT-PCR IMR-treated vs. control
			ratio	SD	ratio	SD	ratio	SD	ratio	SD
A	GM2A	AA453978	0.43↓	(±0.26)	0.39↓	(±0.38)	0.75↓	(±0.47)	0.29↓	(±0.19)
A	DIO2	R62242	0.49↓	(±0.38)	0.01↓	(±0.02)	0.99	(±0.76)	1.12	(±1.6)
D	ROK1	W73792	0.47↓	(±0.25)	0.32↓	(±0.13)	0.80	(±0.47)	1.34↑	(±0.23)
E	DRPLA	H08642	0.65↓	(±0.42)	0.71↓	(±0.12)	0.80↓	(±0.53)	0.66↓	(±0.24)
E	PLCG1	R76365	0.48↓	(±0.23)	0.33↓	(±0.26)	0.81↓	(±0.48)	0.47↓	(±0.28)
F	VRK2	AA490617	0.89↓	(±0.16)	0.04↓	(±0.03)	0.78↓	(±0.22)	0.24↓	(±0.34)
F	CRYAB	AA504943	0.40↓	(±0.08)	0.71↓	(±0.30)	0.72↓	(±0.30)	0.62↓	(±0.13)
F	PSMB	AA070997	0.76↓	(±0.16)	0.30↓	(±0.15)	0.99	(±0.12)	0.51↓	(±0.24)
H	KRT19	AA464250	13.90	(±16.73)	2.43↑	(±0.83)	19.95	(±12.99)	1.14	(±0.32)

TGFβ-differentiated T84 cells compared to T84 cells grown solely in collagen I gel (= TGFβ-treated vs. control) and T84 cells differentiated by soluble factors secreted by mesenchymal cells compared to T84 cells grown solely in collagen I gel (= IMR-treated vs. control). Genes are sorted by functional classification. A: Cellular metabolism (GO:0044237), Metabolism (other than energy metabolism), D: Transcription regulator activity (GO:0030528), E: Signal transducer activity (GO:0004871), Signal transduction (GO:0007165) and Cell communication (GO:0007154), F: Cellular macromolecule metabolism (GO:0044260), H: Organelle organization and biogenesis (GO:0006996I). Upward arrow denotes up-regulated mRNA expression, downward arrow down-regulated mRNA expression, bold indicates genes that have significant alteration in gene expression. Ratios are the mean values calculated from three separate microarray experiments and five separate RT-PCR experiments, the calculated standard deviations (SD) between separate experiments is in the brackets.

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