Frequencies of total, defective, and intact proviruses per 106 total CD4+ T cells as measured by the IPDA at days 0 and 28. Total proviruses were determined as the sum of intact, 5' defective, and 3' defective proviruses from each study participant. Empty symbols represent the limit of detection (LOD), defined as the total number of cells assayed without target identification. Note that due to the low frequencies of intact proviruses, data from total proviruses and defective proviruses are very similar. In study subject 12, a large proviral clone was detected that was classified as genome intact by IPDA but was defective when analyzed using FLIP-seq.
