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. 2014 Dec 20;10(12):768. doi: 10.15252/msb.20145654

Figure 3.

Figure 3

Genomic state annotation predicts bidirectional promoters and (novel) transcripts.

  1. The genomic state annotation (viterbi path) was searched with regular expressions (RegEx) defining bidirectional promoters (right) and transcripts (bottom).
  2. Nucleosome binding patterns centered at 1,076 identified bidirectional promoters found with the RegEx. Each line in the heatmap corresponds to one pair of transcripts. Binding signal is color-coded (right).
  3. A novel SUT (stable unannotated transcript, a stable non-coding RNA, gray area) is identified on the − strand by the bdHMM. The locus shows detectable expression but was too low for the criteria used by Xu et al (2009).
  4. Estimated cumulative probability of TSS and pA site predictions shows higher accuracy of bdHMM in recovering TSSs. pA site prediction has similar accuracy for both models.