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Methods. 2009 Apr;47(4):254-60. doi: 10.1016/j.ymeth.2009.01.002. Epub 2009 Feb 3.

Detecting HIV-1 integration by repetitive-sampling Alu-gag PCR.

Author information

1
Department of Pathology and Laboratory Medicine, Division of Transfusion Medicine, University of Pennsylvania, 3620 Hamilton Walk, 265 JMB, Philadelphia, PA 19104, USA.

Abstract

In this review, we compare four assays that are currently used to measure HIV integration and discuss their strengths and weaknesses. We then outline advances that have been made toward development of a more robust, more sensitive, quantitative HIV integration assay suitable for clinical use. The assay that we have developed uses repetitive-sampling Alu-gag PCR. The detailed protocol describes our assay step-by-step, the creation of an integration standard cell line and accompanying standard curve, as well as the quantitation of integration and calculation of associated error estimates. Finally, we speculate on fundamental, unresolved issues in HIV latency that can be addressed by measuring HIV integration.

PMID:
19195495
PMCID:
PMC2862469
DOI:
10.1016/j.ymeth.2009.01.002
[Indexed for MEDLINE]
Free PMC Article

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