Evidence map›Paper›PMID 29263306›Full record

ArticleJCI insight2017

Computational analysis of antibody dynamics identifies recent HIV-1 infection.

Kelly E Seaton, Nathan A Vandergrift, Aaron W Deal, Wes Rountree, John Bainbridge, Eduard Grebe, David A Anderson, Sheetal Sawant, Xiaoying Shen, Nicole L Yates and 19 more

Abstract read
In one paragraph

Article in JCI insight, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed
–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

9 citing papers in PubMed.

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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

29 authors.

Kelly E SeatonDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.
Nathan A VandergriftDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.
Aaron W DealDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.
Wes RountreeDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.
John BainbridgeDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.
Eduard GrebeSouth African Centre for Epidemiological Modelling and Analysis, Stellenbosch University, Stellenbosch, South Africa.
David A AndersonBurnet Institute, Melbourne, Victoria, Australia.
Sheetal SawantDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.
Xiaoying ShenDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.
Nicole L YatesDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.
Thomas N DennyDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.
Hua-Xin LiaoDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.
Barton F HaynesDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.
Merlin L RobbUS Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, USA; Henry M. Jackson Foundation for the Advancement of Military Medicine, Bethesda, Maryland, USA.
Neil ParkinFoundation for Innovative New Diagnostics, Geneva, Switzerland; Data First Consulting, Belmont, California, USA.
Breno R SantosThe Evaluation of Prevention Methods Linked to Acute and Recent Infection (AMPLIAR) Cohort Group Hospital Conceição is detailed in the Supplemental Acknowledgments.
Nigel GarrettCentre for the AIDS Programme of Research in South Africa, University of KwaZulu-Natal, Durban, South Africa.
Matthew A PriceInternational AIDS Vaccine Initiative, San Francisco, California, USA.
Denise NanicheISGlobal, Barcelona Centre for International Health Research, Hospital Clínic de Barcelona, Universitat de Barcelona, Barcelona, Spain.
Ann C DuerrVaccine and Infectious Disease and Public Health Science Divisions, Fred Hutchinson Cancer Research Center, Seattle, Washington, USA.
CEPHIA group
Sheila KeatingBlood Systems Research Institute, San Francisco, California, USA.
Dylan HamptonBlood Systems Research Institute, San Francisco, California, USA.
Shelley FacenteDivision of HIV, Infectious Diseases and Global Medicine, University of California, San Francisco, San Francisco, California, USA.
Kara MarsonDivision of HIV, Infectious Diseases and Global Medicine, University of California, San Francisco, San Francisco, California, USA.
Alex WelteSouth African Centre for Epidemiological Modelling and Analysis, Stellenbosch University, Stellenbosch, South Africa.
Christopher D PilcherDivision of HIV, Infectious Diseases and Global Medicine, University of California, San Francisco, San Francisco, California, USA.
Myron S CohenUniversity of North Carolina, Chapel Hill, North Carolina, USA.
Georgia D TomarasDuke Human Vaccine Institute, Department of Medicine, Durham, North Carolina, USA.

Funding

Viral Sequencing CoreU19AI067854 · NIAID · DUKE UNIVERSITY · PI BHARDWAJ, NINA · 2006 to 2011
$290.5M
Virus biology scientific research support componentUM1AI100645 · NIAID · DUKE UNIVERSITY · PI MCMICHAEL, ANDREW JAMES · 2012 to 2018
$204.7M
Social and Behavioral Sciences CoreP30AI064518 · NIAID · DUKE UNIVERSITY · PI Nwora Lance Okeke · 2005 to 2026
$50.5M
Viral and Host Determinants of HIV-1 TransmissionU01AI067854 · NIAID · DUKE UNIVERSITY · PI HAYNES, BARTON F · 2005 to 2005
$14.9M
UCLA AIDS Prevention and Treatment Clinical Trials UnitU01AI069424 · NIAID · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI CURRIER, JUDITH S. · 2007 to 2011
$13.9M
NIAID NIH HHS P30 AI064518NIAID NIH HHS U01 AI067854NIAID NIH HHS U01 AI069424NIAID NIH HHS U19 AI067854NIAID NIH HHS UM1 AI100645
6 · The paper itself

Abstract

Accurate HIV-1 incidence estimation is critical to the success of HIV-1 prevention strategies. Current assays are limited by high false recent rates (FRRs) in certain populations and a short mean duration of recent infection (MDRI). Dynamic early HIV-1 antibody response kinetics were harnessed to identify biomarkers for improved incidence assays. We conducted retrospective analyses on circulating antibodies from known recent and longstanding infections and evaluated binding and avidity measurements of Env and non-Env antigens and multiple antibody forms (i.e., IgG, IgA, IgG3, IgG4, dIgA, and IgM) in a diverse panel of 164 HIV-1-infected participants (clades A, B, C). Discriminant function analysis identified an optimal set of measurements that were subsequently evaluated in a 324-specimen blinded biomarker validation panel. These biomarkers included clade C gp140 IgG3, transmitted/founder clade C gp140 IgG4 avidity, clade B gp140 IgG4 avidity, and gp41 immunodominant region IgG avidity. MDRI was estimated at 215 day or alternatively, 267 days. FRRs in untreated and treated subjects were 5.0% and 3.6%, respectively. Thus, computational analysis of dynamic HIV-1 antibody isotype and antigen interactions during infection enabled design of a promising HIV-1 recency assay for improved cross-sectional incidence estimation.

Indexed as

Antibody AffinityAntigen-Antibody ReactionsBiomarkersComputational BiologyHIV-1HIV AntibodiesHIV AntigensHIV InfectionsHumansImmunoglobulin GIncidenceRetrospective StudiesTime FactorsBiomarkersHIV AntibodiesHIV AntigensImmunoglobulin GAIDS/HIVAntigenImmunoglobulinsImmunology

Identifiers

PMID29263306
PMCPMC5752300

What OpenQuestion holds

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Registered trials

None linked

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.