Observations of CAGE-TSSchip in liver versus E17.5 and genomic coordination. (a) Bdh (Bdh1), which encodes 3-hydroxybutyrate dehydrogenase type 1. (b) Aldh7a1, which encodes aldehyde dehydrogenase 7 family, member A1. The red arrow in the tag cluster (TC) track describes cap analysis gene expression (CAGE) tag frequency, and TC width and direction. Transcript tracks show the splicing pattern and coding region of each transcript. PROBE shows the CAGE-TSSchip probes, and the blue values beside each probe are the intensity ratio between the liver and the E17.5 sample from the CAGE-TSSchip experiment. The red values on the bottom of each figure are the validated ratios, according to by quantitative reverse transcription polymerase chain reaction (also see Additional data file 5).