Table II. The numbers of genes classified in functional categories of the GO-based seed-specific TAGGIT workflow (Carrera et al., 2007) that were up-regulated in the tissue shown at each time point for the +ABA arrays.

Tags	RAD				CAP
	8	18	30	96	8	18	30	96
Dormancy related	1	7	6	13	15	20	26	25
Germination related	2	3	3	2	0	0	2	3
ABA	10	16	22	26	8	6	11	12
Auxin	14	14	14	27	10	13	16	12
Brassinosteroid	0	0	1	1	2	3	3	2
Cytokinin	6	3	2	6	1	1	2	2
Ethylene	6	7	7	11	2	5	10	8
GA	6	5	5	5	2	5	3	3
Jasmonic acid	2	6	3	5	0	1	0	1
Seed storage proteins/late embryogenesis abundant	1	4	4	7	6	10	12	10
Inhibition of protein degradation	1	1	1	1	0	1	0	0
Protein degradation	13	19	24	37	18	22	28	35
Heat shock	2	5	6	6	7	10	14	17
Cell wall modification	19	18	15	24	12	18	19	22
Cell cycle related	7	1	9	7	6	14	14	22
Cytoskeleton	6	5	8	6	8	8	14	13
Translation associated	4	1	3	7	63	86	111	137
DNA repair	1	2	3	6	2	4	7	5
Respiration	0	0	0	0	0	1	1	3
Electron transport	1	2	2	3	0	0	1	2
Pentose phosphate pathway	2	2	4	3	0	0	0	0
Glycolysis and gluconeogenesis	6	9	10	8	0	0	1	4
Krebs cycle	2	3	4	4	1	0	1	1
β-Oxidation	2	2	4	4	0	0	0	0
Stress	36	55	53	53	17	24	38	45
Photosynthesis/chloroplast related	48	60	73	134	34	44	69	121
Unannotated	1	2	1	4	2	2	4	3
Unclassified	346	484	496	828	339	438	593	718
Total genes in lists	545	736	783	1,238	555	736	1,000	1,226
Total genes classified above	199	252	287	410	216	298	407	508
Percentage classified	36.5	34.2	36.7	33.1	38.9	40.5	40.7	41.4