Identification of functional modules that correlate with phenotypic difference: the influence of network topology

Table 2 Pathways from the colon cancer dataset found exclusively by PWEA

Pathway	Size	DE fraction^a	Type	Possible relation to the cancer	Reference.
Arachidonic acid metabolism	50	34%	Lipid metabolism	Inflammation Cell growth, related to MAPK signaling pathway	[20–22, 72]
Axon guidance	126	20%	Development	Cell mobility and cell growth, related to MAPK signaling pathway	[28, 32]
Nicotinate and nicotinamide metabolism	23	22%	Metabolism of cofactors and vitamins	Stimulate cell growth	[73, 74]
Drug metabolism - cytochrome P450	63	30%	Xenobiotics biodegradation and metabolism	Therapeutic target, related to prognosis	[75]
Urea cycle and metabolism of amino groups	28	39%	Amino acid metabolic	Nutrition intake	[76]
Pyruvate metabolism	41	37%	Carbohydrate metabolism	Nutrition intake	[76]
Bile acid biosynthesis	31	39%	Lipid metabolism	Lead to high concentration of bile acid Resistance to bile-acid induced apoptosis	[77, 78]
Colorectal cancer	84	15%	Disease	-	-
Long-term depression	70	15%	Disease	Unknown	-
Amyotrophic lateral sclerosis	54	15%	Disease	Inflammation and MAPK signaling pathway	-

^aDE fraction is the fraction of genes that show differential expression with P < 0.05 using a two-tailed t-test.

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