Extended Data Fig. 7: Properties of ASAPseq library during treated infection.
From: Profound phenotypic and epigenetic heterogeneity of the HIV-1-infected CD4+ T cell reservoir
(A) UpSet plot of unique cell barcodes that were collected from each modality (ATAC versus ADT) and detection of proviral reads (HIV) separated by individual. (B) Sequenced regions that are aligned by bwa mem to the proviral genome (autologous + HXB2) and recovered by hiv-haystack. Each column represents an unique infected cell, separated by the individual. The annotated HIV genomic region (as determined from Gene Cutter) is displayed per infected cell. (C) UMAP representation of the ATAC component with numeric labeling prior to manual annotation.
