Table 1 HIV-1 integration datasets from in vitro models of latency
From: HIV latency and integration site placement in five cell-based models
Title | Cell type | Virus | Time of harvest after infection | Sequencing | Generation of expressed vs. silent/inducible | Citation | Silent/inducible unique sites | Expressed unique sites |
|---|---|---|---|---|---|---|---|---|
Jurkat | Jurkat cells | HIV vector pEV731(LTR-Tat-IRES-GFP) | 2 weeks | Sanger | TNF α, GFP expression | [19] | 463inducible | 643 |
Bcl-2 transduced CD4 + | Primary CD4 +T cells (Bcl-2transduced) | HIV NL4-3- Δ6-drEGFP(inactivated gag, vif,vpr, vpu, nef and envreplaced by GFP) | 3 days + 3-4weeks + 3 days | Sanger | Anti-CD3, anti-CD28 antibodies, GFP expression | [20] | 446inducible | 273 |
Active CD4 + | Primary activeCD4 + T cells | HIV NL4-3 | 3 days | 454 | High vs. low Gag | [21] | 1604silent | 1274 |
Resting CD4 + | Primary restingCD4 + T cells | HIV NL4-3 | 3 days | 454 | High vs. low Gag | [21] | 1942silent | 784 |
Central Memory CD4 + | Primary centralmemory CD4 +T cells | HIV NL4-3 ΔNef GFP | 2 days/9 days | IonTorrent | Anti-CD3, anti-CD28 antibodies, GFP expression | This paper | 1729inducible | 3278 |