The threshold for the number of microarray experiments whereas we found statistically significant association was set by the binomial trial estimate P (N, k ) = ∑ k N C N k p k (1 − p ) N − k.
This was not due to technical problems, because detection of Pkd1l2 to levels amenable for analysis failed in direct cDNA amplifications, Q-PCR (see what follows) and microarray experiments, whereas cDNAs from other genes in the non-recombinant region were efficiently detected using the same techniques and templates.
However, no significant difference in ppgA expression was detected in microarray Experiment 1, whereas the qRT-PCR data suggest that ppgA transcript levels are higher during carbon starvation in the xprG + strain.
We emphasize though that our experiment followed cells for almost 24 hours whereas the microarray experiment ran for 1 hour and that the cells stopped growing after about 12 hours when the cell density, as measured by OD, flattened.
Whereas a simple microarray experiment consists of a single perturbation and readouts for tens of thousands of genes, this screen includes thousands of cDNA overexpression perturbations and a single readout.
According to the microarray experiment, region C had significantly increased, whereas regions B, E, and F had significantly decreased DNA methylation in the human brain, compared with the chimpanzee (Table 3).
However, three genes (isotig28679, isotig23410 and contig51269) showed no significant changes in expression in the qPCR experiment, whereas their differential expression in the microarray experiment was statistically significant.
A microarray experiment only measures the "observed" quantities, as shown in Figure 8, whereas the other quantities are not observed ("hidden").
Several proteins within the glycolysis and pyruvate metabolism pathways were up-regulated (e.g Gap1, Pgi), whereas all glycolytic genes except eno were up-regulated in the microarray experiment.
Each microarray experiment was performed in duplicate.
