Figure 3.

Genome-wide profiling of transcriptional burst kinetics

(A) Representation of the two-state model of transcription. k_on: the rate at which a gene becomes transcriptionally active (from off to on); k_off: the rate at which a gene becomes inactive (from on to off); S is the rate of transcription, while the gene is active; d is the rate of mRNA decay. Burst kinetics is characterized through burst frequency (k_on) and the burst size (S/k_off)_..

(B) Estimating the proportion of autosomal genes with bursty expression in EPI and VE cells of the E6.5 stage.

(C) The burst frequency of the two alleles of most of the genes was highly similar in EPI and VE cells of the E6.5 stage (r = 0.80 and 0.82, respectively). Genes having significantly different allelic burst frequency are marked as a red triangle.

(D) A similar burst size of the two alleles of most of the genes in EPI and VE cells of the E6.5 stage (r = 0.51 and 0.59, respectively). Genes having significantly different allelic burst sizes are marked as a red triangle.

(E) Smooth scatterplot showing independence of allelic transcriptional bursting in EPI and VE cells of E6.5 stage. p₀ is the percent of cells expressing neither allele. p₂ is the percent of cells expressing both alleles. Black points represent individual genes. The diagonal blue line (p₀ + p₂ = 1) represents coordinated bursting, whereas the red curve represents perfect independent bursting with shared kinetics.