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Table 1 Criteria to assign experimental specimens to viral transcriptional classes

From: Biphasic decay kinetics suggest progressive slowing in turnover of latently HIV-1 infected cells during antiretroviral therapy

   

No of unique specimensA for each patient

Class

Presence of viral RNA

Further criteria

#103

#104

#110

#111

#112

ILow

UsRNA+

MsRNA

26

46

17

57

34

IIMedium

MsRNA+

Residual (<2 copies/specimen)B content of one type of MsRNA, Ms-tatrev or MsRNA-nef

45

51

56

12

32

IIHigh

MsRNA-tatrev+ MsRNA-nef+

Significant (≥ 2 copies/specimen)B content of two types of MsRNA, MsRNA-tatrev and MsRNA-nef

28

33

19

5

15

IIIR

vRNA-ex+

Residual (<2 copies/specimen)B content of vRNA-ex

14

1

5

4

5

IIIExtra

vRNA-ex+

Significant (≥ 2 copies/specimen)B content of vRNA-ex

25

11

11

5

5

  1. A Unique specimens in an expression class were defined as specimens devoid of cells with higher expression category: Thus unique class-ILow positive samples are devoid of class-IIMedium and class-IIHigh cells, unique class IIMedium specimens are devoid of class-IIHigh.
  2. B Distinction between residual and significant viral RNA content was based on the following rationale: At the endpoint of dilution series of infected cells, specimens containing cells with viral RNA content close to one copy per cell will give PCR-positive readout only in single replicates with considerable variations in ct-values. These data were censored to one copy per specimen as described in Methods. Conversely PCR-readouts ≥ 2 copies/specimen reflect measurements where quantification has been found to be reliable in this dataset.