Table 1

Summary of node, notochord, and DE genes with reduced expression in Foxa2 mutants.

Expression Group

Gene Symbol

Microarray* (MGU74v2A)

Microarray* (MOE430v2)

Q-PCR*

Reduced expression in Foxa2 mutants by whole mount in situ hybridization


Known node and/or notochord markers

Foxd4

-2.80

-3.74

-4.64

Compare Figures 2A and 2D (n = 6/6)

Ref: [34]

Foxa1

-1.18

-1.56

-1.69

Ref: [10]

T

-0.90

-0.78

-1.43

Ref: [10-12]

Foxa2

-1.28

-0.87

--

--

Shh

--

-1.43

--

Ref: [10-12,38]

Car3

--

-1.55

--

--

Cthrc1

--

-1.45

--

--

Chrd

--

-1.49

--

--

Tmprss2

--

-0.36

--

--

Dynlrb2

--

-0.69

--

--


Novel node and/or notochord markers

Gal

-0.93

-1.58

-3.32

Compare Figures 2B and 2E (n = 7/7)

Prnp

-0.65

-0.76

-0.30

Data not shown (n = 3/3)

Pim1

-0.63

-1.68

--

--

Smoc1

-0.20

-0.68

--

--

Gstm5

-0.48

--

--

--

Cyb561

-0.40

--

--

--

1700027A23Rik

--

-1.01

--

--

Josd2

--

-1.04

--

--

Mlf1

--

-0.87

--

--

1700009P17Rik

--

-1.26

--

--


Known DE markers

Sox17

-0.83

-0.87

-0.58

--

Cer1

-1.40

-1.87

-2.32

Ref: [38]

Foxa2

-1.28

-0.87

--

--

Foxa1

-1.18

-1.56

-1.69

Ref: [10]

Trh

-0.65

-0.79

--

--

Shh

--

-1.43

--

Ref: [10-12,38]

Gprc5c

--

-1.64

--

--

Cyp26a1

--

-0.40

--

--

Tmprss2

--

-0.36

--

--

Cpn1

--

-0.79

--

--


Novel DE markers

Cldn4

-0.60

--

-0.40

Ref: (Burtscher & Lickert, 2008, manuscript submitted)

Itga3

-0.58

--

-0.60

Compare Figures 2C and 2F (n = 4/4)

Cpm

--

-2.45

--

--

Efhd2

--

-0.64

--

--

Ppp1r14a

--

-0.90

--

--


* values are log2 transformed ratios of Foxa2 mutant pools over wild type

Abbreviation: DE, definitive endoderm

Tamplin et al. BMC Genomics 2008 9:511   doi:10.1186/1471-2164-9-511

Open Data