GOSim – an R-package for computation of information theoretic GO similarities between terms and gene products

BMC Bioinformatics

Table 1 Functional groups found on the different chip platforms.

Clust. no.	Clust. size	sil. ind.	platform	regulation	function
9	27	0.62	cDNA	up	transport
13	10	0.93	cDNA	up	intracellular signaling cascade, protein transport
14	16	0.82	cDNA	up	cell adhesion
15	38	0.51	cDNA	up	transcription, signal transduction
16	5	0.58	cDNA	up	cytoskeleton organization and biogenesis, behavior
18	74	0.74	cDNA	up	transcription
20	15	0.67	cDNA	up	immune response
23	2	0.67	cDNA	up	catabolism
28	22	0.54	cDNA	up	protein localization
29	16	0.61	cDNA	up	protein modification
30	8	0.54	cDNA	up	chromatin assembly or disassembly, protein complex assembly
31	2	1.0	cDNA	up	mitochondrial electron transport, NADH to ubiquinone
33	2	0.62	cDNA	up	fibroblast growth factor receptor signaling pathway
2	25	0.79	cDNA	down	transcription
4	23	0.51	cDNA	down	transport
7	12	0.58	cDNA	down	immune response
4	19	0.73	Affymetrix	up	metabolism, transport
5	4	0.66	Affymetrix	up	blood coagulation, immune response
8	45	0.54	Affymetrix	up	transcription
12	11	0.92	Affymetrix	up	cell adhesion
2	12	0.52	Affymetrix	down	metabolism

ISSN: 1471-2105