In both 0 2 hr embryos and S2 cells, Initiation peaks are visible at the starts of uORFs starting with an ATG codon (green box) and a near-cognate TTG codon (yellow box) as well as at the annotated start codon (beginning of thick gray box).
An exception to this is a transient post-initiation peak of K36me2 and me3 at the yeast MET16 promoter (Morillon et al, 2005).
In both cases, model output closely reproduced the data within Cohort E, including quantitative shedding frequency, as well as episode rate, median initiation to peak and peak to termination slopes, durations, and first, last, and peak HSV DNA copy numbers.
Among 109 episodes, 75% of which were subclinical, median regression slopes from initiation to peak and peak to termination were 20.3 and −8.7 log10/day, respectively.
Model output reproduced (A ) quantitative shedding frequency as well as (B ) rate, (C ) median initiation to peak and peak to termination slopes, (D ) Duration, (E ) first HSV DNA copy number, (F ) last HSV DNA copy number, and (G ) peak HSV DNA copy number of episodes.
Model output with continuous release (82 HSV DNA particles per day) of virus randomly to 300 (pink), 100 (blue), and 50 (brown) regions reproduced (A ) quantitative shedding frequency and episode, (B ) rate, (C ) median initiation to peak slope and peak to termination slopes, (D ) Duration, (E ) first HSV DNA copy number, (F ) last HSV DNA copy number, and (G ) peak HSV DNA copy number.
Model output with continuous release (82 HSV DNA particles per day) of virus to 50 randomly dispersed regions (brown) reproduced (A ) quantitative shedding frequency and episode, (B ) rate, (C ) median initiation to peak slope and peak to termination slopes, (D ) Duration, (E ) first HSV DNA copy number, (F ) last HSV DNA copy number, and (G ) peak HSV DNA copy number.
(A ) Median initiation to peak slope, and (B ) peak to termination slopes increased substantially with continual sampling.
The three median measures (1. episode rate, 2. median initiation to peak slope, and 3. median peak to termination slope) only contained one bin such that the initial weighting factors were equal to the bin weighting factors.
episode rate, 2. episode duration, 3. median initiation to peak slope, 4. median peak to termination slope, 5. first positive copy number of episodes, 6. last positive copy number of episodes, 7. peak positive copy number of episodes, and 8. quantitative shedding) a weighting factor to ensure that each summary measure carried an equivalent weight.
