Finally, we identified cis-functioning lncRNAs and showed that knockdown of these lncRNAs modulated the nearby protein-coding gene’s transcriptional burst frequency or size. In summary, we identified distinct
Results Using Bayesian methodology, we measure the transcriptional bursting in inducible transgenes, showing that perturbation of polymerase shuttling typically reduces burst size, increases burst frequency, and thus limits transcriptional noise. Analysis based on paired-end tag sequencing (PolII ChIA-PET)...
determined: the active fraction (the fraction of cells that shows a TS within 1 h after galactose addition), the induction time (the time between galactose addition and the first burst), the burst duration, the time between bursts (as a measure for burst frequency) and the burst intensity...
In fact, for our data, these two models give consistent results in terms of CV2, average burst size α/koff, and burst frequency k~on. To study the transcriptional noise, we obtained the CV2 of the mRNA abundance (which we refer to as CVX2) from the estimated parameters (Additional ...
These include the burst fraction, length of transcriptional bursts (burst duration), and burst frequency. To measure these features, we defined four regions for each simulation: low expression state (baseline time-region), entry into the high expression state (entry time-point), the high ...
Another recent study supports a highly dynamic view of enhancer-promoter contacts in mammalian cells and shows that enforcing promoter-enhancer looping can increase transcriptional burst frequency, but doesn’t affect burst size (Bartman et al., 2016). One should also consider that alternative ...
Transcriptional bursting may be understood in terms of several parameters (Fig.1a), including the burst size (transcripts produced per burst,b), burst frequency (bursts per unit time,κ), decay rate (transcripts degraded per unit time,δ), transcript lifetime (average transcript survival time,γ...
and demonstrate that cell-type-specific gene expression is primarily shaped by changes in burst frequencies. Together, our data show that burst frequency is primarily encoded in enhancers and burst size in core promoters, and that allelic single-cell RNA sequencing is a powerful model for investigat...
Tapping and stimulation frequency is usually adapted to the metabolic activity of Hevea clones. In extreme cases of environmental or man-made stress due to rubber tree tapping, an oxidative burst occurs in the laticifers. That oxidative stress leads to peroxidation of lipids in the membrane of ...
et al. Transcriptional burst frequency and burst size are equally modulated across the human genome. Proc. Natl Acad. Sci. USA 109, 17454–17459 (2012). Article ADS CAS Google Scholar Dattani, J. & Barahona, M. Stochastic models of gene transcription with upstream drives: exact solution ...