- The fold changes observed with microarray and RT-PCR analysis are indicated, where a positive value indicates an increase in gene expression and a negative value a decrease in gene expression. Through the coloring scheme, validation (confirmation by RT-PCR of the direction of fold change seen with microarrays) of low RV genes is not achieved; however, as RV increases, concordance increases (red = genes with no concordance across the 3 diets; blue = genes with either one or two measurements in agreement; green = genes with 100% concordance). Overall concordance with the 5% LFC model was 77.7%, which includes measurements found to be both significant and non-significant by microarray analysis. Underlined numbers indicate the HFC that resulted in this gene being selected as significantly different by the 5% LFC model (77.7% concordance with RT-PCR results). Starred-numbers indicate significant fold changes, determined by a student's t-test using α = 0.05, seen by RT-PCR. § indicates those pairwise comparisons (treatment vs. control) that meet the 5% LFC model criteria. 85.7% concordance is seen when comparing significant fold changes by RT-PCR with significant fold changes using the 5% LFC model.
