Densely sampled viral trajectories suggest longer duration of acute infection with B.1.1.7 variant relative to non-B.1.1.7 SARS-CoV-2 kissler2021densely
This study analyzed densely sampled longitudinal RT-qPCR data from 65 individuals infected with SARS-CoV-2, including 7 infected with the B.1.1.7 (Alpha) variant, using each person’s lowest Ct value as the reference event time point. Inclusion criteria required each individual to have at least 5 positive PCR tests (Ct < 40), including at least one with Ct < 35. Ct value were collected using the Roche cobas target 1 assay and converted to estimated RNA viral concentrations via a standard curve and log-linear transformation.
Analytes
AN_OPS_SARSCoV2
SARS-CoV-2 RNA gene copy concentration in combined anterior nares and oropharyngeal swabs. Results were reported in cycle threshold (Ct) values.
Fitted by censored maximum likelihood. The red line is the median individual; the shaded region is the full range of a simulated cohort drawn from the fitted population, so it shows what simulating from this dataset would produce rather than a confidence interval, with dashed lines at the central 95%. Open triangles are non-detects, drawn at the censoring limit and entering the fit as "below this value" rather than being dropped. See the modelling methods for what these estimates do and do not support.