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.

Jones et al. BMC Genomics 2010 11:136   doi:10.1186/1471-2164-11-136

Open Data