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