For these 2 markers, we applied a transcript cut-off value of 0.50 ng/μL (specificity of the cut-off is more than 90%, as confirmed in 20 healthy donor samples).
These classes of RNAs include small-nuclear (sn) RNAs, small-nucleolar (sno) RNAs, and cryptic unstable transcripts (CUT).
These include antisense transcription reads (to ORF-Ts), which increase in GAL compared to GLU and 25.7% of the 1772 annotated non-coding transcripts, the stable unannotated transcripts (SUTs), or cryptic unstable transcripts (CUTs), which show >threefold change in transcription on the GLU to GAL shift (Supplementary file 1E).
These complexes also target a class of cryptic unstable transcripts (CUTs), resulting in their immediate degradation following transcription (Wyers et al, 2005; Arigo et al, 2006b; Thiebaut et al, 2006; Vasiljeva and Buratowski, 2006).
An alternative model of inhibition of coding gene by non-coding transcription from bidirectional promoter is via the competition for the same pool of general transcription factors as was described for cryptic unstable transcripts (CUTs) regulating TPI1 gene expression in the yeast [ 44].
In addition to RNA processing, turnover and surveillance activities, the exosome is important for the degradation of so-called cryptic unstable transcripts (CUTs) that are produced from thousands of loci within the yeast genome.
Many non-coding, cryptic unstable transcripts (CUTs) were also recovered, as anticipated.
In S. cerevisiae, deletion of Rrp6 is tolerated, but cells display steady state increases in RNA transcripts such as antisense and cryptic unstable transcripts (CUTs) [ 76, 77].
Recent studies have also indicated that polyadenylation of yeast cryptic unstable transcripts (CUTs) by TRAMP directs them to degradation by nuclear exosomes (Wyers et al, 2005).
In yeast, many divergently transcribed ncRNAs are cryptic unstable transcripts (CUTs) that are 5′ capped and polyadenylated, with a median length of 400 bp.
Trf4 is a member of the TRAMP complex, which degrades cryptic unstable transcripts (CUTs) (Butler 2002; Davis and Ares 2006; Wyers et al. 2005).
