We also scanned databases of tissue-specific RNA expression in humans, finding some genes with elevated hypothalamus expression in human orthologues (Supplementary Information and Supplementary Table 13).
Genes with elevated expression in the pathogenic phases of both isolates included a number of genes that were involved in the response to environmental stress as well as in the metabolism of lipids.
c Ingenuity pathway analysis of genes with elevated expression (red bars) and decreased expression (turquoise) (N = 190).
Islet tumors were identified by a cluster of 311 genes with elevated expression (correlation ≥0.75).
Other genes with elevated expression in late TB lesions appear to modulate the pro-inflammatory immune response.
This trend is exemplified by 128 transcripts associated with mouse genes orthologous to the human "mitosis" genes with elevated expression in human psoriasis (e.g., GO 0007067; see Figure S12).
We focused on genes with elevated expression in endothelial cells in all pairwise comparisons, yielding a total of 207 probe sets (Supplemental Data S4), which were then subjected to functional annotation using GeneSpring.
The pro-inflammatory cytokine, interleukin 1 (IL1) was identified as a second putative modulator (p<0.0001) for the top network formed by genes with elevated synchrony in depression (Figure 3D; Table 1).
A ToppGene functional analysis of the list of 207 genes with elevated expression in embryonic endothelial cells gave similar results, providing lists of genes involved in angiogenesis, vasculogenesis, blood vessel morphogenesis, response to oxygen levels, hemopoiesis, and other biological processes these cells are engaged in (Supplementary Data S6).
In addition the ToppGene analysis identified key evolutionarily conserved transcription factor binding sites (RGAGGAARY-V$PU1_Q6, V$STAT6_02, V$STAT4_01, V$ELF1_Q6, RYTTCCTG_V$ETS2_B and V$ETS2_B) enriched in the proximal promoter regions of multiple genes with elevated expression (Supplementary Data S6).
Orthologs were identified for genes with elevated Ka/Ks values.
