Fig. 3

Quantification of viral isoforms produced in different HIV-1 expression models determined by ONT sequencing. a Relative abundance of viral RNA classes estimated either at D1 SS (dots) or at D4 SS (square) in infected CD4+ T cells from 3 different donors. Relative abundances of MS (2-kb), IS (4-kb) and US (9-kb) RNA classes were based on the number of reads harbouring or not a splice junction at D1 or D4 amongst all annotated reads as described in Additional file 8: Figure S3. Mean values and standard deviations are indicated. b Quantification of viral spliced isoforms expressed at 24 hpi in CD4+ T cells (INF T cells), HeLa cells (INF HeLa) or 24 h after transfection of HeLa cells (TF HeLa) according to ONT sequencing. Heatmap indicates the relative level of viral isoforms as a percentage of reads mapping to this particular transcript amongst reads mapping to all viral spliced transcripts. Only transcripts that were represented at least 5 times across replicates were considered. ND not detected