Assessment of protein set coherence using functional annotations

BMC Bioinformatics

Table 1 Non-significant cellular components

GO	Cellular component	Size	Score	p-value	s	r
				1.08E-01	2	752
GO:0005641	nuclear envelope lumen	4	0.22	4.32E-01	2	1754
				6.22E-01	2	2314
				2.36E-01	2	944
GO:0031588	AMP-activated protein kinase complex	5	0.18	1.08E-01	4	2148
				2.71E-01	4	2828
				2.07E-01	2	1480
GO:0000306	extrinsic to vacuolar membrane	3	0.17	5.10E-01	2	2560
				6.47E-01	2	3027
				4.35E-01	3	1970
GO:0031314	extrinsic to mitochondrial inner membrane	6	0.14	5.13E-01	4	2955
				6.10E-01	4	3192
				6.33E-01	2	1934
GO:0031902	late endosome membrane	5	0.14	3.25E-01	4	2996
				7.84E-01	4	4159
				1.60E-01	3	1045
GO:0005775	vacuolar lumen	7	0.13	2.29E-01	4	1855
				2.40E-01	6	3301
				2.05E-01	4	1105
GO:0031307	integral to mitochondrial outer membrane	11	0.12	7.20E-01	5	2513
				8.66E-01	9	4449
				3.30E-01	7	2223
GO:0031312	extrinsic to organelle membrane	13	0.12	6.42E-02	12	3540
				4.45E-01	12	4352
				3.41E-01	3	1739
GO:0009898	internal side of plasma membrane	6	0.12	4.98E-01	5	3709
				8.66E-01	5	4496

GO cellular components with coherence scores above mean pairwise similarity in reference set, which are not significant (p-value > 0.05) according to the three criteria. Size of reference set |R| is 5051 gene products.

ISSN: 1471-2105