Table 1.

Pathway analyses of clustered gene sets

Cluster	Pathways	P Value	# Genes	Sourcea
1	Translation, ribosomal proteins
	RNA binding	9.6E−6	29 of 1632	T
	Translation initiation	2.4E−8	12 of 194	T
	rRNA processing	5.9E−7	12 of 260	T
	Translation initiation	8.1E−9	12 of 191	G
	rRNA processing	1.6E−6	11 of 257	G
	Protein metabolism	1.1E−4	32 of 2061	G
2	Ribosomes, translation, ER targeting
	Structural constituent of ribosome	6.4E−36	46 of 216	T
	Translation	3.5E−50	54 of 165	T
	Translation termination	4.8E−50	45 of 97	T
	Translation elongation	8.6E−50	45 of 98	T
	Translation	1.7E−40	35 of 91	G
	ER targeting, membrane targeting	1.6E−39	35 of 96	G
	Translation initiation	5.4E−33	39 of 191	G
	Ribosome	1.8E−36	35 of 119	G
3	ECM, collagens, integrins
	ECM organization	6.5E−38	56 of 354	T
	TGF-β	6.7E−10	44 of 824	G
	MMPs	2.1E−6	21 of 331	G
	Integrin signaling	6.6E−13	15 of 70	G
	ECM organization	5.5E−39	53 of 331	G
	Smad2	2.9E−12	31 of 436	G
4	ECM, development
	Regulation of development	1.7E−14	60 of 1893	T
	ECM	2.0E−18	33 of 444	T
	ECM	3.4E−15	29 of 530	G
	Smad signaling	1.3E−7	20 of 491	G
	TGF-β	8.2E−7	25 of 824	G
5	Immunity, inflammatory response
	Antigen processing and presentation	2.1E−11	10 of 94	T
	Defense response	3.8E−11	30 of 1651	T
	Immune, inflammatory response	1.9E−22	34 of 549	T
	Innate immune system	8.8E−5	18 of 1459	G
	Immune response	7.1E−9	25 of 2042	G
6	Metabolism, transporters, kidney disease
	Transmembrane transporters	1.4E−19	81 of 1014	T
	Organic acid metabolic process	3.0E−30	104 of 1131	T
	Acidosis	2.5E−12	50 of 475	T
	Metabolic pathways	1.1E−23	109 of 1272	T
	Kidney disease	1.3E−15	53 of 569	T
	Metabolism	6.6E−20	126 of 2100	G
	TCA cycle	1.1E−13	27 of 169	G
	Transmembrane transporters	2.6E−21	68 of 1034	G
	Renal tissue	2.7E−49	122 of 1247	G
	Metabolic disease	3.6E−14	71 of 903	G
7	Respiration, mitochondria
	Cellular respiration	1.1E−7	16 of 178	T
	Response to hypoxia	2.5E−7	14 of 143	T
	TCA cycle	6.4E−6	14 of 171	T
	Cellular respiration	3.2E−7	14 of 168	G

ER, Endoplasmic reticulum; MMPs, Matrix metalloproteinase; rRNA, Ribosomal RNA; TCA, tricarboxylic acid.

^aT, ToppGene; G, Genomatix.