Fig. 6: Quantitative differential expression of EMT-related genes by real-time PCR.
Quantitative comparison of EMT-related gene expression in Lrp1m/m vs. WT in the endocardial cushion at E10.5, prepared using Morpheus (Broad Institute) (a). a Genes which were repeatably over- (red) or under-expressed (blue) are shown. After discarding measurements with unacceptably low copy number (gray; raw Ct > 40), replicate ddCt values were filtered with an outlier test (ROUT, Q = 10%) and samples with three replicates were tested against a H0 that ddCt = 0 using a one-sample two-tailed t test. Genes that passed (p < 0.05) are shown, along with other strongly responsive genes (p ≥ 0.05, but mean > variance). Red indicates genes upregulated in Lrp1m/m and blue indicates downregulated. The functional relationships between these genes is shown in (b); bolded names or outlines indicate genes with significant overexpression or underexpression and lighter names or outlines indicates strongly responsive but not significant. Color coding is the same as in (a); black outlines or names represent key genes that are not overexpressed or underexpressed in this analysis. The major cellular pathways represented by this gene set are shown in (c), as determined by Ingenuity Pathway Analysis.
