Table 2 List of genes up-regulated by RA and down-regulated by BMS493 at 8-somites stage (with FDR < 0.01).

From: Identification of downstream effectors of retinoic acid specifying the zebrafish pancreas by integrative genomics

Gene name

FC (RA vs DMSO)

FDR (RA vs DMSO)

FC (DMSO vs BMS)

FDR (DMSO vs BMS)

hoxb5b*

12.07

1.55E−32

6.26

7.24E−16

slc13a2

8.58

2.14E−07

11.18

7.32E−07

dhrs3a*

8.13

2.40E−18

100.51

1.57E−56

hoxb6b

7.46

4.15E−10

3.40

5.40E−03

si:ch211-157b11.8

7.65

1.62E−06

5.32

3.25E−03

SLC22A3*

5.43

1.09E−08

30.78

1.85E−27

ezra

5.25

4.97E−04

7.89

3.59E−05

tmem30c

5.15

9.33E−05

8.01

1.85E−05

cldn15a

4.66

7.70E−04

10.12

1.86E−07

pcdh10a*

4.41

2.42E−04

9.77

8.08E−09

epb41l4a

3.57

6.96E−06

7.06

6.52E−11

nr2f1a*

3.53

4.28E−05

5.98

3.93E−09

hmga2

2.54

5.11E−04

3.18

6.39E−05

hoxa3a

18.66

9.70E−40

3.41

1.59E−05

skap1

12.49

8.28E−17

5.17

1.66E−04

masp1

9.61

2.19E−10

17.11

2.99E−07

foxg1b*

8.27

1.11E−06

25.02

2.99E−07

si:dkey-172f14.2

8.00

7.40E−08

14.27

1.77E−04

zgc:194209

7.70

1.29E−07

6.84

6.66E−04

cldn2

7.40

2.18E−06

11.58

1.85E−05

si:dkey-25e11.10

5.68

8.30E−06

6.95

1.05E−03

ascl1a

5.61

7.72E−08

11.93

2.35E−07

cldnc

5.19

1.96E−06

10.72

8.81E−12

hoxc1a*

5.00

1.10E−05

5.90

1.09E−05

iqgap2

4.75

1.55E−04

4.80

3.76E−03

zgc:113054

2.90

1.66E−04

3.36

8.39E−05

tshz1*

2.90

1.51E−03

2.93

7.29E−03

  1. The regulation of each gene is shown by the Fold Change expression ratio (FC) and with the False Discovery Rate (FDR) for the RA treatment (column 2 and 3) and for the BMS493 treatment (columns 4 and 5). The genes highlighted in bold are those showing enriched expression in endoderm (FC > 4 and FDR < 0.01). Genes displaying the same regulation at 3 somites (Table 1) are shown by an asterisk.
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