+ Inter-species Comparison. (A) Using the human-mouse comparison data from Schroder et al., we kept 2,058 genes with a known pig orthologue. From this list, we selected 834 genes for the analysis that are significantly different between human and mouse after 6h of LPS stimulation (p<0.01). (B) Using Biolayout 3D, we could cluster genes expression into 8 groups using a Pearson correlation (R=0.85, MCL=2.2). (C) Expression of the porcine IDO1 and NOS2A genes are similar to their expression in humans, in comparison to mouse. The fold change between 0 h – /7 h LPS (in log2) of human (n=4), mouse (n=3) and pig macrophages (5 breeds, 5 animals per breed) are shown. (D) All neighbouring nodes of IDO1 were selected (142 genes) and 33 genes were found having a correlation higher than 0.95 with IDO1. (E) We selected the 143 neighbours of NOS2, genes sharing the same expression profile. From this list, 40 genes had a correlation with NOS2A > 0.95.
Kapetanovic et al. BMC Genomics 2013 14:581 doi:10.1186/1471-2164-14-581