The transcriptome of HCC tumors contains a large number of distal noncoding transcripts. (A) Schematic representation of the coding, proximal, and distal CAGE peaks. (B) Numbers of peaks in the different groups. (C) Distribution of distances between distal peaks and their closest coding peaks. (D) Expression levels in the different groups for the indicated etiologies. The data are means over tumors belonging to a given etiology group (tpm: tags per million + 0.001). (E) Expression patterns of coding and distal peaks across human body (988 human expression data from the FANTOM5 project). We counted the numbers of tags located within each TSS region in each sample, and then the number of samples that expressed tumor transcripts with the criterion of at least one tag. Coding peaks are ubiquitously expressed, whereas distal peaks are only expressed in limited cell types. Proximal and distal peaks show a similar expression pattern (Supplemental Fig. S1D).
