Quantitation of the latent HIV-1 reservoir from the sequence diversity in viral outgrowth assays

Retrovirology

Table 2 Summary of outgrowth assay results for two patients

Patient	Positive wells (total wells)						IUPMStats	# variants
Patient	\(\mathsf{10^6}\)	\(\mathsf{2\times 10^5}\)	\(\mathsf{4\times 10^4}\)	\(\mathsf{8000}\)	\(\mathsf{1600}\)	\(\mathsf{320}\) cells	(95% CI)	(gp41, pol)
106	8 (8)	2 (2)	0 (2)	0 (2)	0 (2)	0 (2)	8.148	10, 4
							(1.863, 35.635)
111	13 (16)	0 (2)	0 (2)	0 (2)	0 (2)	0 (2)	1.551	13, 20
							(0.851, 2.825)

For each dilution (number of cells per well), we report the number of positive wells (total number of wells). IUPM estimates and 95% confidence intervals (CIs) under the single-hit Poisson model were generated using the JavaScript calculator at http://silicianolab.johnshopkins.edu (last access date: June 23, 2017). The final column reports the number of sequence variants that were observed in regions within HIV gp41 and pol, respectively, when HIV RNA was extracted, amplified and sequenced from the positive wells

ISSN: 1742-4690