Table 1

Cross-validation by qRT-PCR and CAGE in mouse liver versus E17.5

Target gene

CAGE-TSSchip

qRT-PCR

CAGE

Probe ID

Ratioa

Ratioa

Ratioa


Scp2

pT04R06588376_1_55

1.54

2.22

2.25

Phyh

pT02F004A4350_1_56

1.47

1.48

2.09

H2-Q7

pT17F02067AF1_1_1

1.33

1.44

2.52

Gcgr

pT11F072A22AF_1_56

1.10

1.32

1.58

1500017E21Rik

pT19R022303AA_2_11

1.08

1.09

0.39b

H2-K1

pT17R01EFDD1A_2_55

1.08

1.36

3.04

Ttr

pT18F01417BA8_1_61

1.03

1.27

0.47b

Creb3l3

pT10R04D401D2_1_59

0.99

1.18

1.76

Aldh7a1

pT18R0366ABBD_1_60

0.95

0.39b

2.17

Apoa1

A_65_P16973as

0.93

1.14

0.76

Ttr

pT18F014197F5_1_51

0.93

1.14

0.56

Ppara

pT15F0521ABCF_1_61

0.92

0.92

1.77

Bdh

pT16F01DD69D0_1_61

0.83

0.91

0.93

Hhex

pT19F022F5EF6_1_61

0.75

0.88

1.63

H2-K1

pT17R01EF8909_1_61

0.67

-0.35b,c

2.89

Trf

A_65_P04625as

0.65

0.59

0.94

Mdh1

A_51_P218179as

0.57

0.19b

0.03b

Mcm7

pT05R08145E66_1_60

-0.52

-0.87

-0.33b

Nisch

pT14R019FAD28_1_56

-0.54

-0.27b

0.67c

D0H4S114

pT18R02055333_1_60

-0.67

-1.04

-0.95


Primer sequences are available in Additional data file 9. We assume that the absolute calue of the log ratio >0.5 is significantly different expression between liver and E17.5. aRatio = log10(liver/E17.5). bNon-significance. cTendency for the sample to be highly different from the CAGE-TSSchip result. CAGE, cap analysis gene expression; qRT-PCR, quantitative reverse transcription polymerase chain reaction.

Katayama et al. Genome Biology 2007 8:R42   doi:10.1186/gb-2007-8-3-r42

Open Data