Figure 5: RNA annotation by means of DHS classification.
From: Nuclear stability and transcriptional directionality separate functionally distinct RNA species
(a) Flow chart illustrating the filtering steps made to extract transcribed DHSs with interesting properties, such as those emitting unstable mRNAs or novel stable multi-exonic lincRNAs. The number of DHSs passing each filtering step based on lenient (DHS cluster membership) and strict (additional sensitivity thresholding) criteria is indicated at each arrow. For stable and unstable DHSs, an exosome sensitivity threshold of ≤0.25 and ≥0.75, respectively, was used in addition to DHS cluster membership for strict filtering. The subset of 24,007 transcribed HeLa DHSs, which were either unannotated or associated with GENCODE-annotated TSSs of mRNAs or lncRNAs (see Methods), were considered. (b) Fraction of unannotated DHSs (not overlapping known TSSs) overlapping other genomic features, broken up by DHS cluster. Absolute numbers and fractions of DHSs in each class falling into the unannotated category are shown on top. UTR, untranslated region. Sense refers to major strand.
