Comparing gene annotation enrichment tools for functional modeling of agricultural microarray data

BMC Bioinformatics

Table 5 Annotation performance

Tool	# Genes input	#Genes recognized	#Genes annotated	#Annotations retrieved
*A. Test gene annotation set*
Onto-Express	60	60	56	313
EasyGO	60	56	45	339
GOstat	60	60	56	303
DAVID	60	60	58	1662
AgBase	60	60	49	474
*B. Experimental chicken gene set*
Onto-Express	31	29	24	328
EasyGO	31	31	21	104
GOstat	31	31	25	227
DAVID	31	26	26	615
AgBase	31	27	22	136

For each tool, the number of gene identifiers used as input, the number of genes recognized, the number of genes for which some GO annotation was retrieved, and the total number of annotations for all genes is given for both the Test Set and the Experimental Set.

ISSN: 1471-2105