Improved detection of rare HIV-1 variants using 454 pyrosequencing.
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ABSTRACT:
SUBMITTER: Larsen BB
PROVIDER: S-EPMC3788733 | biostudies-literature | 2013
REPOSITORIES: biostudies-literature
Publications
Improved detection of rare HIV-1 variants using 454 pyrosequencing.
Larsen Brendan B BB Chen Lennie L Maust Brandon S BS Kim Moon M Zhao Hong H Deng Wenjie W Westfall Dylan D Beck Ingrid I Frenkel Lisa M LM Mullins James I JI
PloS one 20131002 10
454 pyrosequencing, a massively parallel sequencing (MPS) technology, is often used to study HIV genetic variation. However, the substantial mismatch error rate of the PCR required to prepare HIV-containing samples for pyrosequencing has limited the detection of rare variants within viral populations to those present above ~1%. To improve detection of rare variants, we varied PCR enzymes and conditions to identify those that combined high sensitivity with a low error rate. Substitution errors we ...[more]
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