BMC Bioinformatics

Table 2 Functional analysis results for experimental dataset. Number of functional terms in each of the three GO branches present in the original dataset, after removal of redundant annotations and selected after analysis with each of the proposed methods. A) Toxicogenomics study, B) Potato Stress study, C) Arabidopsis IAA treatment study.

From: Functional assessment of time course microarray data

A) Toxicogenomics study
			SELECTIONS
GO category	Original Annotation	Non redundant Annotations	maSigFun	PCA-maSigFun	ASCA-Functional	STEM	Pair-wise
BP	1828	967	7	33	15
MF	992	534	8	15	20
CC	398	243	0	10	8
		total	15	58	43	0	49
B) Potato Stress study
			SELECTIONS
GO category	Original Annotation	Non redundant Annotations	maSigFun	PCA-maSigFun	ASCA-Functional	STEM	Pair-wise
BP	2444	780	23	258	116
MF	943	431	21	141	29
CC	369	203	14	48	46
		total	58	447	191	0	46
C) Arabidopsis IAA study
			SELECTIONS
GO category	Original Annotation	Non redundant Annotations	maSigFun	PCA-maSigFun	ASCA-Functional	STEM	Pair-wise
BP	2640	1120	3	60	201
MF	1769	694	8	24	45
CC	499	260	0	8	61
		total	11	92	307	46	284

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ISSN: 1471-2105

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