Table 3.

Verification of GeneChip Microarray Data by TaqMan Quantitative Real-Time PCR¹

Gene2	3Fold Change GD-13 vs. GD-12	3Fold Change GD-14 vs. GD-13	4Concordance
TGFß1	-1.32	2.05	+/+
Latent transforming growth factor beta binding protein 1	1.21	2.03	+/+
Dachshund-1	1.23	-2.10	+/+
BMP10	-2.70	2.30	+/+
BMP15 or GDF-9B	2.30	-2.00	+/+
BMP receptor, type II	-2.15	1.05	+/+
Cerberus 1	2.06	1.73	+/-
Inhibin alpha	2.03	-1.36	+/+
Sox-4	-2.01	-1.41	+/+
Signal transducer and activator of transcription 4 (Stat4)	2.15	2.05	+/-
Cyclin-dependent kinase inhibitor 1A (p21)	1.70	3.00	+/+
Cyclin-dependent kinase inhibitor 1B(p27)	-2.15	-1.30	+/+
Cyclin dependent kinase inhibitor 2B (p15)	2.01	1.36	+/+
MMP9	3.03	1.19	+/+

¹Developmental expression patterns of 14 genes in embryonic orofacial tissue were compared using Affymetrix GeneChip Arrays and TaqMan Quantitative Real-Time PCR as detailed in Materials and Methods. All analyses were performed in triplicate.

²Target genes were selected based on results from Affymetrix GeneChip Arrays.

³Note that GD-13 vs. GD-12 means that expression on gestation day 12 was utilized as the baseline, and that GD-14 vs. GD-13 means that expression on gestation day 13 was utilized as the baseline. Therefore, negative numbers indicate a decrease in expression, whereas positive numbers indicate an increase in expression.

⁴+/+ indicates full concordance in the pattern/level of gene expression obtained during both the GD-12 to GD-13 developmental interval and the GD-13 to GD-14 developmental interval using Affymetrix GeneChip Arrays and TaqMan Quantitative Real-Time PCR. “+/-” indicates a comparable pattern of gene expression was detected in the gd-12 to gd-13 developmental interval and a differing pattern of gene expression was detected in the gd-13 to gd-14 developmental interval using Affymetrix GeneChip Arrays and TaqMan Quantitative Real-Time PCR.