Stochastic variation of transcript abundance in C57BL/6J mice

Vedell, Peter T; Svenson, Karen L; Churchill, Gary A

doi:10.1186/1471-2164-12-167

BMC Genomics

Table 2 Module highlights

From: Stochastic variation of transcript abundance in C57BL/6J mice

	Module	Data-base	Functional Category	In Module	In Category	Overlap	%	p-value	c
Adipose	turquoise	GO_MF	endopeptidase inhibitor activity	52	55	8	15	7E-25	0.44
	blue	GO_BP	epidermis development	184	40	12	30	3E-23	0.00
	brown	GO_CC	contractile fiber	450	56	39	70	2E-74	0.07
	gold	GO_MF	acyl group transferase activity	102	64	10	16	6E-19	0.12
	green	GO_MF	cytokine activity	147	53	15	28	6E-32	0.28
	red	GO_BP	Apoptosis	34	245	6	2	7E-06	0.42
	black	GO_BP	energy pathways	110	104	10	10	2E-09	0.00
	magenta	GO_BP	immune system process	1340	324	158	49	1E-34	0.00
Heart	turquoise	GO_BP	inflammatory response	102	103	14	14	6E-21	0.17
	blue	GO_BP	anti-apoptosis	115	29	5	17	3E-10	0.20
	brown	GO_CC	antigen presentation, exogenous antigen	52	15	9	60	1E-75	0.03
	gold	KEGG	leukocyte activation	145	116	18	55	1E-25	0.00
	green	GO_CC	extracellular matrix	898	111	57	51	2E-26	0.00
	red	GO_BP	monosaccharide biosynthetic process	313	18	8	44	1E-13	0.00
	black	GO_CC	ubiquitin ligase complex	237	14	5	36	1E-10	0.00
	pink	GO_CC	mitochondrial membrane part	147	27	12	44	1E-55	0.00
Kidney	turquoise	GO_BP	acute inflammatory response	146	46	17	37	1E-47	0.01
	blue	GO_CC	extracellular matrix	94	111	22	20	8E-51	0.42
	brown	GO_MF	carboxylic acid transmembrane transport	159	19	4	21	3E-07	0.58
	gold	GO_BP	antigen presentation, exogenous antigen	72	15	7	47	2E-56	0.57
	green	GO_CC	mitochondrial outer membrane	141	34	5	15	1E-06	0.59
	red	GO_MF	nucleoside-triphosphatase activity	46	159	4	3	4E-03	0.13
	black	GO_BP	fatty acid biosynthetic process	59	42	5	12	3E-12	0.10
	pink	GO_BP	down regulation of signal transduction	92	50	6	12	6E-12	0.69
	magenta	KEGG	oxidative phosphorylation	711	50	19	38	7E-08	0.00
Liver	turquoise	GO_CC	Myofibril	70	54	9	17	2E-26	0.02
	blue	GO_MF	enzyme regulator activity	146	227	13	6	1E-03	0.77
	brown	GO_CC	extracellular matrix	112	111	13	12	2E-13	0.74
	gold	GO_BP	cholesterol biosynthetic process	101	18	6	33	5E-26	0.44
	green	GO_MF	selenium binding	395	14	5	36	7E-06	0.39
	red	GO_BP	cytokine-mediated signalling pathway	152	21	5	24	5E-10	0.72
	black	GO_BP	blood vessel development	138	109	9	8	2E-05	0.78
	pink	GO_BP	antigen presentation, exogenous antigen	69	15	6	40	4E-45	0.79
	magenta	GO_BP	ribosome biogenesis	176	22	5	23	1E-08	0.74

Best enrichment scores of co-expression modules are shown. Within each tissue, modules are listed by the colour code orders of Figure 3. The number of genes in the module, the number of variable genes in the highest scoring functional category, the overlap between these two sets of genes, the enrichment p-value for the highest scoring category [11], and the median intraclass correlation, c, for genes in the module are shown. Only categories with between 10 and 500 genes and a minimum overlap of 4 genes were considered.

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ISSN: 1471-2164

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