HIRIS: HIV-1 Reservoirs Integration Sites “high-rise”

Sources

The database contains 3,260 in vivo and 57,069 in vitro observations across 11,033 genes from the following sources.

In vivo datasets

Data source First author Publication n
NCI-RID Mack KD HIV insertions within and proximal to host cell genes are a common finding in tissues containing high levels of HIV DNA and macrophage-associated p24 antigen expression. 34
NCI-RID Han Y Resting CD4+ T cells from human immunodeficiency virus type 1 (HIV-1)-infected individuals carry integrated HIV-1 genomes within actively transcribed host genes. 74
NCI-RID Ikeda T Recurrent HIV-1 integration at the BACH2 locus in resting CD4+ T cell populations during effective highly active antiretroviral therapy. 461
NCI-RID Maldarelli F HIV latency. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. 2,160
Wagner-2014-Science Wagner TA HIV latency. Proliferation of cells with HIV integrated into cancer genes contributes to persistent infection. 531

In vitro datasets

Data source First author Publication n
NCI-RID Mack KD HIV insertions within and proximal to host cell genes are a common finding in tissues containing high levels of HIV DNA and macrophage-associated p24 antigen expression. 3
SherrillMix-2013 Lewinski MK Genome-wide analysis of chromosomal features repressing human immunodeficiency virus transcription. 1,105
SherrillMix-2013 Shan L Influence of host gene transcription level and orientation on HIV-1 latency in a primary-cell model. 719
SherrillMix-2013 Pace MJ Directly infected resting CD4+T cells can produce HIV Gag without spreading infection in a model of HIV latency. 5,603
SherrillMix-2013 Sherrill-Mix S HIV latency and integration site placement in five cell-based models. 5,004
Sunshine-2016-JVI Sunshine S HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. 432
Wang-2007 Wang GP HIV integration site selection: analysis by massively parallel pyrosequencing reveals association with epigenetic modifications. 44,203

Citation entries for the published data sources above are available for download in BibTeX format, which is readable by most citation management software.

Mullins Lab

Copyright © 2015–2018 University of Washington. Previously published datasets are copyright their respective authors and used in accordance with their licenses.

This work was supported by the National Institutes of Health [R01AI111806, R21AI22361].

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