Optimization of allele-specific PCR using patient-specific HIV consensus sequences for primer design

Valerie F. Boltz, Frank Maldarelli, Neil Martinson, Lynn Morris, James A. McIntyre, Glenda Gray, Mark J. Hopley, Toshio Kimura, Douglas L. Mayers, Patrick Robinson, John W. Mellors, John M. Coffin, Sarah E. Palmer

Research output: Contribution to journalArticlepeer-review

Abstract

Allele-specific PCR based on subtype consensus sequences is a powerful technique for detecting low frequency drug resistant mutants in HIV-1 infected patients. However, this approach can be limited by genetic variation in the region complementary to the primers, leading to variability in allele detection. The goals of this study were to quantify this effect and then to improve assay performance.

Original languageEnglish (US)
Pages (from-to)122-126
Number of pages5
JournalJournal of Virological Methods
Volume164
Issue number1-2
DOIs
StatePublished - Mar 2010

Keywords

  • Allele-specific PCR
  • HIV-1
  • Low frequency variants
  • Patient-specific HIV-1 consensus sequence
  • Subtype consensus sequence

ASJC Scopus subject areas

  • Virology

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