Exact(8)
When viewed across many linked transmission partners, such viral advantages should emerge as measurable statistical biases.
We compared, for 137 linked transmission pairs, the amino acid sequences encoded by non-envelope genes of viruses in both partners and demonstrate a selection bias for transmission of residues that are predicted to confer increased in vivo fitness on viruses in the newly infected, immunologically naïve recipient.
Since 36 linked transmission events had plasma HIV-1 measured at a visit prior to documented seroconversion, we used a sensitivity analysis to evaluate the use of the first positive HIV-1 test by either serology or RT-PCR as the endpoint in the Cox model.
Genotyping has become a powerful tool for confirming epidemiologically linked transmission of M. tuberculosis.
Third, at baseline, participants consent to not receiving the results of phylogenetic analysis that would indicate whether or not the new infection was a linked transmission.
The two genotype 1a-infected subjects had sequences that were no more closely related to each other than to other isolates from the Los Angeles area, indicating that these were not a closely linked transmission pair.
Similar(52)
The proportions of each subtype among linked transmissions were almost identical for gag sequences.
Specifically, among linked transmissions, 69.8%, 66.7%, and 73.7% of env sequences, were subtype A, C, and D, respectively.
PP4's consensus env and gag sequences were polyphyletic, with distances and Bayesian posterior probabilities outside the expected range for linked transmissions (Table S1).
Because the trial's intervention was intended to reduce infectiousness in the HIV-1 infected partner, only linked transmissions were relevant to ascertainment its efficacy.
Furthermore, there was a trend toward the proportion of linked transmissions being greater among seroconversions identified at the first 3-month study visit compared to seroconversions identified after 3 months (89.5% versus 66.9%, p = 0.06).
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