Rapid quantification and differentiation of human polyomavirus DNA in undiluted urine from patients after bone marrow transplantation biel2000rapid
This paper reports development and use of qualitative seminested PCR (to discriminate BK vs JC virus) and quantitative TaqMan PCR for detecting/quantifying human polyomavirus DNA in urine specimens from patients after bone marrow transplantation. The quantitative assay is reported to be linear from 10^7 to 10^1 copies per assay. CSV-extracted longitudinal urine viral DNA measurements are provided here as time series per patient.
Analytes
urine_polyomavirus_dna
Quantitative TaqMan PCR (TM-PCR) assay for general detection/quantification of human polyomavirus (huPoV) DNA in urine; assay linear range reported as 10^7 to 10^1 copies per assay. The TM-PCR assay itself does not discriminate BK from JC virus, but per Fig. 8, all four patients shown here were confirmed positive for BKV only (not JCV) throughout the time course by the separate seminested PCR (snPCR) discrimination assay.
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.