Computational expression deconvolution in a complex mammalian organ

BMC Bioinformatics

Table 6 Biological Processes regulated by Ras activation. Biological Process terms significantly associated with lists of genes that were detected as differentially expressed, both before ("Pre-adj") and after ("Post-adj") adjusting for estimated changes in cell compartment sizes in the mammary glands at d4 vs. d0 following Ras activation.

GO Term	Pre-adj	Post-adj
(a) Upregulated genes
cell surface receptor linked signal transduction		X
cell-matrix adhesion		X
DNA metabolism	X
inflammatory response		X
integrin-mediated signaling pathway		X
M phase of mitotic cell cycle	X
mRNA processing	X
protein amino acid phosphorylation		X
regulation of organismal physiological process		X
response to wounding		X
RNA processing	X
signal transduction		X
(b) Downregulated genes
antigen presentation, endogenous antigen	X
ATP synthesis coupled electron transport	X
carbohydrate metabolism	X
cellular lipid metabolism	X
cofactor metabolism	X
electron transport	X
fatty acid metabolism	X
fatty acid oxidation	X
glycolysis	X
lipid metabolism	X
nucleoside triphosphate metabolism		X
organic acid metabolism	X
oxidative phosphorylation	X
proton transport		X
purine nucleoside triphosphate metabolism		X
ribonucleoside triphosphate metabolism		X
sterol biosynthesis		X
tricarboxylic acid cycle	X

ISSN: 1471-2105