ncRNA

CpG islands is clearly much lower than observed at protein-coding genes (72%) [55]; however, our results are similar to those reported by Ponjavic et al. for ncRNA genes expressed in mouse development, which were associated with

PLoS Biology: New Articles Francesca De Santa et al. 2010

Overall, the role of ncRNA transcripts versus transcription in conveying regulatory information likely varies depending on the regulatory region considered, and ad hoc experiments will be required to understand the relative frequency of the two groups of mechanisms.

PLoS Biology: New Articles Francesca De Santa et al. 2010

LCR, locus control region; lncRNA, long non-coding RNA; ncRNA, non-coding RNA; Pol_II, RNA polymerase II; PRE, polycomb group response element; PWM, position weight matrix; TF, transcription factor; TFBS, transcription factor binding site; TSS, transcription start site

PLoS Biology: New Articles Francesca De Santa et al. 2010

However, we believe that an additional important aspect should be considered in distinguishing enhancers that generate functional RNAs from canonical RNA genes: the local and temporally restricted cis-regulatory role of the enhancer-associated ncRNA (temporal restriction being related to the rapid degradation of these transcripts after they are synthesized).

PLoS Biology: New Articles Francesca De Santa et al. 2010

These two catalogues show little overlap, suggesting that each of them includes only a small fraction of a presumably much larger ncRNA repertoire

PLoS Biology: New Articles Francesca De Santa et al. 2010

Cells were stimulated with LPS+γIFN as indicated. y-axes indicate mRNA (left) or ncRNA (right) levels relative to those of a housekeeping gene (TBP).

PLoS Biology: New Articles Francesca De Santa et al. 2010

CCND1 gene [20], and the Evf2 ncRNA (derived from an ultraconserved regulatory region) was shown to act in

PLoS Biology: New Articles Francesca De Santa et al. 2010

Seven of the eight "unclassified ncRNA candidates" can be readily annotated as homologs of well-known ncRNAs.

BioMed Central - Latest articles 2010

To start characterizing the properties of the extragenic transcription described above, we first analyzed kinetics of induction of the corresponding ncRNA relative to that of the downstream coding gene.

PLoS Biology: New Articles Francesca De Santa et al. 2010

An example of a specific effect of the transcription process itself, in which the ncRNA product apparently has no direct role, is provided by the

PLoS Biology: New Articles Francesca De Santa et al. 2010