Temporal dynamics of RSV shedding and genetic diversity in adults during the COVID-19 pandemic in a French hospital, early 2021 coppee2023temporal
Hospital-based observational study in adults admitted to Foch hospital (Suresnes, France) between Jan 1 and Mar 31, 2021. Systematic nasopharyngeal swab testing using the Alinity M RESP-4-Plex RT-PCR assay identified 8 RSV-positive adults (patients A–H). This extraction captures RSV RT-PCR cycle threshold (Ct) values over time from a figure-derived CSV; symptomatic participants are timed from symptom onset, and asymptomatic participants are timed from first positive PCR (confirmation date).
Analytes
nasopharyngeal_swab_RSV_ct_symptomatic
RSV RNA detection in nasopharyngeal swabs (NPS) using Alinity M RESP-4-Plex (Abbott Molecular) RT-PCR. RSV positive defined per manufacturer; Ct value ≤40 considered positive and Ct >40 considered negative. Time for symptomatic participants is days after symptom onset (as used for duration of positive PCR in symptomatic individuals).
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.
nasopharyngeal_swab_RSV_ct_asymptomatic
RSV RNA detection in nasopharyngeal swabs (NPS) using Alinity M RESP-4-Plex (Abbott Molecular) RT-PCR. RSV positive defined per manufacturer; Ct value ≤40 considered positive and Ct >40 considered negative. For asymptomatic individuals, timing is days after first positive PCR (confirmation date).
Measurements only — no shedding model is fitted to this analyte, usually because it is sampled once per participant, leaving no trajectory to fit, or because nothing was ever detected. Open triangles are non-detects, drawn at the assay's censoring limit. See the modelling methods for what these estimates do and do not support.