Linking microarray reporters with protein functions

BMC Bioinformatics

Table 3 Gene Ontology classification and pathway visualization using all approaches

	On Array	Annotated	In Pathway Gene Database	On Local Pathways	On GO Levels
Incyte UniGene I
Old	9,596	9,370	3,730	924	3,130
TargetIdentifier	9,596	2,008	1,990	615	1,827
RefSeq	9,596	6,359	4,356	1,110	3,777
Our Approach	9,596	6,973	6,710	1,609	5,597
Agilent G2519A
Old	41,013	17,325	17,041	2,351	10,554
RefSeq	41,013	25,625	15,763	2,286	10,408
Our Approach	41,013	27,077	25,694	2,927	14,482

This table summarizes for each approach all reporters that could be imported and visualized using the GenMAPP program. A clear distinction has been made between the local MAPPs released on September 20^th, 2006 and the Gene Ontology database, built in the MAPPFinder program of GenMAPP (Release date: August 25^th, 2005). In general, improving the annotation yields better pathway visualization.

ISSN: 1471-2105