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Table 1 Cross-validation by qRT-PCR and CAGE in mouse liver versus E17.5

From: CAGE-TSSchip: promoter-based expression profiling using the 5'-leading label of capped transcripts

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
  1. 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.