Table 2.

Expression data for selected transcription factors in both array formats.

			Array Format 1			Array Format 2
Figure 3a	Array Format 2 ID	Annob	Ratioc	P-valued	SEe	Ratioc	P-valued	SEe
1	SB0018	AP2	2.072	0.231983	0.409	52.887	<0.0001	6.521
2	SB0057	bHLH	2.001	0.011171	0.018	3.386	0.0002	0.562
3	SB0056	DNA-bdg	2.319	0.182539	0.389	1.089	0.5504	0.147
4	SB0044	fibrillarin	2.196	0.074646	0.141	4.129	<0.0001	0.160
5	SB0007	Hap	3.027	0.071495	0.229	1.274	0.0017	0.079
6	SB0091	Hap	2.000	0.217781	0.356	2.152	0.0011	0.276
7	SB0001	CBF-A	2.000	0.217781	0.356	2.518	0.0031	0.454
8	SB0020	PIF	3.658	0.076532	0.321	1.110	0.5013	0.161
9	SB0049	SCR	2.081	0.101934	0.175	1.433	0.0533	0.216
10	SB0085	SCL3	2.081	0.101934	0.175	2.242	0.0132	0.392
11	SB0054	SCR/Hat	2.702	0.020638	0.055	1.774	0.078	0.422
12	SB0086	SEUSS	2.091	0.2248	0.402	1.145	0.0294	0.064
13	SB0022	TIF	4.047	0.06914	0.332	0.972	0.8424	0.139
14	SB0066	TIF	4.047	0.06914	0.332	1.198	0.1634	0.137
15	SB0002	Tubby	2.256	0.149746	0.301	2.548	<0.0001	0.263
16	SB0047	AGP4	2.389	0.194411	0.438	3.314	<0.0001	0.317
17	SB0009	ZIM	2.008	0.015291	0.024	0.911	0.1933	0.067
18	SB0092	ZIM	2.008	0.015291	0.024	1.725	<0.0001	0.124
19	SB0068	zipper	2.860	0.009257	0.027	11.114	<0.0001	0.563

The average normalized ratio, p-value, and standard error in Array Formats 1 and 2 of 19 transcription factors is shown, at the stage of dry seed vs. 100-200 mg cotyledons. These values are displayed in graphical form in Figure 3, where the transcription factors are numbered according to the list in the first column. Also shown are the identification numbers of the gene in Array Format 2 and a brief annotation. In Array Format 2, different oligos may correspond to the 5' and 3' ends of the same gene; these genes' Array Format 1 values will thus appear twice.

a: Number given to gene in Figure 3.

b: Brief description of the gene's function, based on the longer annotation.

c: Average normalized ratio for that gene, in Array Format 1 or 2, at the dry seed stage (versus reference).

d: P-value for that gene at this stage. P-values less than 0.0001 are indicated with "<0.0001."

e: The standard error of the normalized ratios.