Highly expressed gene are genes with mean expression values >90th percentile.
Sample size represents n = 2 biologically independent experiments, and the mean expression values are shown.
Our findings revealed that the brain GAPDH mRNA mean expression values decreased with increasing PMI in all studied groups.
Mean 0.030 0.654 0.00 a SD 0.032 0.355 asignificant < 0.05 Open image in new window Fig. 1 GAPDH mean expression values in brain of different groups at different time intervals.
Thus, duplicate hybridizations performed for the same sample were averaged to create mean expression values.
We calculated genewise mean expression values across all samples and used the first quartile as threshold to determine gene expression.
Figure 3( left) shows a scatter plot of mean expression values for the kidney sample with the respective sets of genes highlighted.
All data was co-normalized in the program AltAnalyze [47] with the RMA algorithm, producing mean expression values for each group of biological replicates.
Each overexpressed gene in the list can then be assessed by the Student t test to calculate the P or Q values (false discovery rate) [21] [23], mean expression values (mean 1, mean 2), and the normalized Student t value.
Significantly regulated genes are presented with the fold >0.5 for downregulation and >1 for upregulation between the mean expression values of B16F1 control and SMAR1 stable clones in triplicate experiments.
For the correlation analysis, we calculated differences between humans and chimpanzees as a difference between mean expression values within species, for all genes detected on both mRNA and protein levels.
