Widespread bidirectional promoters are the major source of cryptic transcripts in yeast

By H. Neil, C. Malabat, Y. D'Aubenton-Carafa, Zhenyu Xu, Lars M. Steinmetz, A. Jacquier. Nature, 2009

621 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/c1a927adb4781994d281f9551c6445c61dd684c8

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In Molecular Biology

Citations in the corpus

Regulation of Cell Wall Biogenesis in Saccharomyces cerevisiae: The Cell Wall Integrity Signaling Pathway (2011, background): “Indeed, examination of a yeast 39 SAGE database (Neil et al. 2009) reveals that short sense transcripts are produced across the promoter regions of 10% of proteincoding genes (Kim and Levin 2011), suggesting that transcriptional attenuation may be a widespread phenomenon.”
Long noncoding RNAs: functional surprises from the RNA world. (2009, background): “For example, small RNAs have been found to cluster near the 59 and 39 ends of genes (Han et al. 2007; Kapranov et al. 2007a; Core et al. 2008; He et al. 2008; Preker et al. 2008; Seila et al. 2008; Fejes-Toth et al. 2009; Neil et al. 2009; Taft et al. 2009; Xu et al. 2009).”
The many pathways of RNA degradation. (2009, background): “…from promoter regions in human cells (Core et al., 2008; He et al., 2008; Preker et al., 2008; Seila et al., 2008) and yeast (Davis and Ares, 2006) (Neil et al., 2009), and this may also be the Cell 136, 763–776, February 20, 2009 ª2009 Elsevier Inc. 769 The primary transcripts for endogenous…”
Non-coding RNA: what is functional and what is junk? (2015, neutral): “…RNA degradation machinery is either depleted or inhibited (Wyers et al., 2005; Davis and Ares, 2006; Thiebaut et al., 2006; Chekanova et al., 2007; Milligan et al., 2008; Preker et al., 2008; Vasiljeva et al., 2008; Neil et al., 2009; Xu et al., 2009; Tisseur et al., 2011; Tan-Wong et al., 2012).”
A quantitative atlas of polyadenylation in five mammals (2012, background): “Indeed, the functional roles of thousands of novel transcripts were widely debated, although it was later shown that a substantial class of ‘‘novel transcripts’’ plays more general roles in transcriptional regulation (Neil et al. 2009; Xu et al. 2009).”
Gene regulation by the act of long non-coding RNA transcription (2013, background): “The association of lncRNA transcription with gene activation needs, however, to be considered within the framework that most protein-coding gene promoters in yeast and mammalian cells give rise to a bidirectional antisense lncRNA transcript [106,107].”
Genome-wide characterization of transcriptional start sites in humans by integrative transcriptome analysis. (2011, background): “Indeed, this is the case for ‘‘enhancer RNAs’’ (Kim et al. 2010), ‘‘cryptic unstable transcripts (CUTs)’’ (Berretta and Morillon 2009; Jacquier 2009; Neil et al. 2009), ‘‘stable unannotated transcripts (SUTs)’’ (Xu et al. 2009), and other emerging classes of RNAs (Preker et al. 2008; Seila et al. 20”