ESTuber db: an online database for Tuber borchii EST sequences

BMC Bioinformatics

Table 2 Ontologies distribution in GO categories.

	Tb ascocarps	Tb mycelia	Aspergillus	Fusarium	Magnaporthe	Neurospora	Saccharomyces
Total number of sequences	683	2,588	35,924	10,302	53,102	28,089	3,041
Unigenes percentage	62.22	84.89	91.6	91.67	94.78	56.28	99.44
GO annotation percentage	55.49	46.14	61.09	46.89	44.54	44.15	78.72
MOLECULAR FUNCTION	39.97	42.19	54.2	43.74	40.77	40.14	67.91
binding	20.94	21.14	25.41	19.78	18.84	19.5	43.47
catalytic activity	17.72	20.83	32.1	30.35	20.39	21.98	30.71
structural molecule activity	6.59	6.45	5.11	2.3	5.57	7.77	16.38
transporter activity	3.51	3.71	6.43	6.57	5.76	3.9	6.91
molecular function unknown	3.37	0.97	0.88	0.62	0.72	0.54	1.84
signal transducer activity	0.15	0.39	1.05	0.49	0.6	0.61	0.72
translation regulator activity	1.02	1.43	1.2	1.48	1.82	0.95	1.51
transcription regulator activity	0	0.46	1.79	0.79	2.39	1.08	2.7
enzyme regulator activity	0.15	0.7	0.39	0.19	0.34	0.2	1.71
antioxidant activity	0.73	0.35	0.62	0.14	0.55	0.48	1.25
BIOLOGICAL PROCESS	42.02	35.55	43.59	34.49	32.45	34.18	68.33
physiological process	41.43	32.92	40.93	32.93	28.91	32.4	67.41
cellular process	37.92	30.87	35.44	30.36	25.61	28.93	66
regulation of biological process	0.73	2.09	3.7	1.96	4.04	2.21	6.68
CELLULAR COMPONENT	15.96	15.92	15.56	8.83	11.89	12.84	55.87
organelle	13.76	11.67	11.81	6.88	8.97	10.5	50.51
protein complex	13.91	11.01	8.79	4.46	7.11	7.73	28.74

Ontologies distribution in the three main GO categories and in their subclasses of the Tb ascocarps and mycelia subsets and of the five fungi EST datasets considered for comparison purposes. Data on EST collection redundancies and on the GO annotation percentages are given at the top of the table. Matches with GO entries are expressed as percentage of matching sequences with respect to the total number of sequences of the considered dataset. Only GO categories where at least one of the considered organisms had a percentage of matches > 1 were included in the table.

ISSN: 1471-2105