Evidence map›Paper›PMID 28659324›Full record

ArticleJournal of clinical microbiology2017

Multimethod Longitudinal HIV Drug Resistance Analysis in Antiretroviral-Therapy-Naive Patients.

Aubin J Nanfack, Andrew D Redd, Jude S Bimela, Genesis Ncham, Emmanuel Achem, Andrew N Banin, Allison R Kirkpatrick, Stephen F Porcella, Lucy A Agyingi, Josephine Meli and 6 more

Abstract read
In one paragraph

Article in Journal of clinical microbiology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
19citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

19 citing papers in PubMed, 1 synthesis or guideline pooled it.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

16 authors.

Aubin J NanfackDepartment of Pathology, New York University School of Medicine, New York, New York, USA.
Andrew D ReddDivision of Intramural Research, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland, USA.
Jude S BimelaDepartment of Pathology, New York University School of Medicine, New York, New York, USA.
Genesis NchamDepartment of Pathology, New York University School of Medicine, New York, New York, USA.
Emmanuel AchemDepartment of Pathology, New York University School of Medicine, New York, New York, USA.
Andrew N BaninDepartment of Pathology, New York University School of Medicine, New York, New York, USA.
Allison R KirkpatrickDivision of Intramural Research, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland, USA.
Stephen F PorcellaGenomics Unit, Research Technologies Branch, Rocky Mountain Laboratories, Division of Intramural Research, NIAID, NIH, Hamilton, Montana, USA.
Lucy A AgyingiMedical Diagnostic Center, Yaoundé, Cameroon.
Josephine MeliMedical Diagnostic Center, Yaoundé, Cameroon.
Vittorio ColizziChantal Biya International Reference Centre for Research on HIV/AIDS Prevention and Management, Yaoundé, Cameroon.
Arthur NádasInstitute of Environmental Medicine, New York University School of Medicine, New York, New York, USA.
Miroslaw K GornyDepartment of Pathology, New York University School of Medicine, New York, New York, USA.
Phillipe N NyambiDepartment of Pathology, New York University School of Medicine, New York, New York, USA.
Thomas C QuinnDivision of Intramural Research, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland, USA.
Ralf DuerrDepartment of Pathology, New York University School of Medicine, New York, New York, USA ralf.duerr@nyumc.org.ORCID 0000-0001-9569-9237

Funding

Vaccine Response and Immunotherapeutics SWGP30AI094189 · NIAID · JOHNS HOPKINS UNIVERSITY · PI Richard E. Chaisson · 2012 to 2026
$67.0M
International Center for Excellence in Research (ICER) in Uganda: Impact of ARVsZIAAI001040 · NIAID · NATIONAL INSTITUTE OF ALLERGY AND INFECTIOUS DISEASES · PI REYNOLDS, STEVEN · 2009 to 2025
$23.5M
International Studies of the Acquired Immune Deficiency Syndrome (AIDS)ZIAAI000361 · NIAID · NATIONAL INSTITUTE OF ALLERGY AND INFECTIOUS DISEASES · PI REDD, ANDREW · 2009 to 2025
$15.8M
Viral Evolution and Humoral Immune Response to Dual HIV-1 InfectionR01AI083142 · NIAID · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI GORNY, MIROSLAW K · 2010 to 2015
$2.6M
Training Program on HIV Diversity and Drug Resistance-Enhancing Research CapacityD43TW009604 · FIC · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI GORNY, MIROSLAW K · 2013 to 2017
$1.4M
Viral Evolution and Humoral Immune Response to Dual HIV-1 InfectionR56AI083142 · NIAID · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI NYAMBI, PHILLIPE N · 2009 to 2009
$407k
FIC NIH HHS D43 TW009604NIAID NIH HHS P30 AI094189NIAID NIH HHS R01 AI083142NIAID NIH HHS R56 AI083142
6 · The paper itself

Abstract

The global intensification of antiretroviral therapy (ART) can lead to increased rates of HIV drug resistance (HIVDR) mutations in treated and also in ART-naive patients. ART-naive HIV-1-infected patients from Cameroon were subjected to a multimethod HIVDR analysis using amplification-refractory mutation system (ARMS)-PCR, Sanger sequencing, and longitudinal next-generation sequencing (NGS) to determine their profiles for the mutations K103N, Y181C, K65R, M184V, and T215F/Y. We processed 66 ART-naive HIV-1-positive patients with highly diverse subtypes that underlined the predominance of CRF02_AG and the increasing rate of F2 and other recombinant forms in Cameroon. We compared three resistance testing methods for 5 major mutation sites. Using Sanger sequencing, the overall prevalence of HIVDR mutations was 7.6% (5/66) and included all studied mutations except K65R. Comparing ARMS-PCR with Sanger sequencing as a reference, we obtained a sensitivity of 100% (5/5) and a specificity of 95% (58/61), caused by three false-positive calls with ARMS-PCR. For 32/66 samples, we obtained NGS data and we observed two additional mismatches made up of minority variants (7% and 18%) that might not be clinically relevant. Longitudinal NGS analyses revealed changes in HIVDR mutations in all five positive subjects that could not be attributed to treatment. In one of these cases, superinfection led to the temporary masking of a resistant virus. HIVDR mutations can be sensitively detected by ARMS-PCR and sequencing methods with comparable performances. Longitudinal changes in HIVDR mutations have to be considered even in the absence of treatment.

Indexed as

AdultAnti-HIV AgentsBase SequenceCameroonDrug Resistance, ViralFemaleHigh-Throughput Nucleotide SequencingHIV-1HIV InfectionsHumansMaleMutationPolymerase Chain ReactionReverse Transcriptase InhibitorsSequence Analysis, RNAAnti-HIV AgentsReverse Transcriptase InhibitorsARMS-PCRdrug-naive patientsdrug resistance mutationsHIVhuman immunodeficiency viruslongitudinal changesnext-generation sequencingSanger sequencingsubtype diversitysuperinfectiontransmitted drug resistance

Identifiers

PMID28659324
PMCPMC5648714

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.