A transcriptional cycling model recapitulates chromatin-dependent features of noisy inducible transcription
Fig 6
Implementing transcriptional activation via increases in multiple parameters reproduces transcriptional activation heterogeneity observed for a range of latent HIV integrations with more biological accuracy.
(A) Schematic of multi-point three-pronged activation in the transcriptional cycling model for HIV. (B-D) Scatterplots of three-state promoter simulation with feedback compared to experimental measurements for mRNA Average (B), Fano factor (C), and CV (D). Error bars represent 95% bootstrapped confidence intervals. (E) Fractional state probabilities under basal conditions for the four integrations based upon the three-state model. Simulations were run 1,000 times. (F) Simulated trajectory protein data of 50 representative cells out to 24 hours of the four integrations. (G) Violin kernel fitting of protein distributions at basal conditions and at 24 hours of the four integrations. Black bar represents the mean. Red dashed line represents a protein threshold of 275 with percentages as the amount above that threshold.