Evidence map›Paper›PMID 30355496›Full record

ArticleCell reports2018

Completeness of HIV-1 Envelope Glycan Shield at Transmission Determines Neutralization Breadth.

Kshitij Wagh, Edward F Kreider, Yingying Li, Hannah J Barbian, Gerald H Learn, Elena Giorgi, Peter T Hraber, Timothy G Decker, Andrew G Smith, Marcos V Gondim and 16 more

Open access · goldAbstract read
In one paragraph

Article in Cell reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 86 papers.

0numbers the graph read from it
0cells of the map it votes in
86citing papers in PubMed
8.3field-weighted citation impact, top 1% of its field
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

86 citing papers in PubMed, 114 citations in OpenAlex.

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26 more citing papers are in PubMed but not listed here.

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

26 authors at 8 institutions in 2 countries.

Kshitij WaghTheoretical Biology & Biophysics, Los Alamos National Laboratory, Los Alamos, NM 87545, USA.
Edward F KreiderPerelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Yingying LiPerelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Hannah J BarbianPerelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Gerald H LearnPerelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Elena GiorgiTheoretical Biology & Biophysics, Los Alamos National Laboratory, Los Alamos, NM 87545, USA.
Peter T HraberTheoretical Biology & Biophysics, Los Alamos National Laboratory, Los Alamos, NM 87545, USA.
Timothy G DeckerPerelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Andrew G SmithPerelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Marcos V GondimPerelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Lindsey GillisCenter for Virology and Vaccine Research, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02115, USA.
Jamie WandzilakCenter for Virology and Vaccine Research, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02115, USA.
Gwo-Yu ChuangVaccine Research Center, NIH, Bethesda, MD 20892, USA.
Reda RawiVaccine Research Center, NIH, Bethesda, MD 20892, USA.
Fangping CaiDuke Human Vaccine Institute, Duke University School of Medicine, Durham, NC 27710, USA.
Pierre PellegrinoCenter for Sexual Health & HIV Research, Mortimer Market Centre, London WC1E 6JB, UK.
Ian WilliamsCenter for Sexual Health & HIV Research, Mortimer Market Centre, London WC1E 6JB, UK.
Julie OverbaughHuman Biology Division, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA.
Feng GaoDuke Human Vaccine Institute, Duke University School of Medicine, Durham, NC 27710, USA.
Peter D KwongVaccine Research Center, NIH, Bethesda, MD 20892, USA.
Barton F HaynesDuke Human Vaccine Institute, Duke University School of Medicine, Durham, NC 27710, USA.
George M ShawPerelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Persephone BorrowNuffield Department of Clinical Medicine, University of Oxford, Oxford OX3 7FZ, UK.
Michael S SeamanCenter for Virology and Vaccine Research, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02115, USA.
Beatrice H HahnPerelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA. Electronic address: bhahn@pennmedicine.upenn.edu.
Bette KorberTheoretical Biology & Biophysics, Los Alamos National Laboratory, Los Alamos, NM 87545, USA. Electronic address: btk@lanl.gov.
University of Pennsylvania · USLos Alamos National Laboratory · USBeth Israel Deaconess Medical Center · USDuke University · USNational Institutes of Health · USMortimer Market Centre · GBFred Hutch Cancer Center · USUniversity of Oxford · GB

Funding

Virus biology scientific research support componentUM1AI100645 · NIAID · DUKE UNIVERSITY · PI MONTEFIORI, DAVID C · 2012 to 2018
$204.7M
Virus and Antibody Gene Sequencing CoreP01AI131251 · NIAID · UNIVERSITY OF PENNSYLVANIA · PI GEORGE M SHAW · 2017 to 2026
$40.7M
Design Of ImmunogensZIAAI005024 · NIAID · NATIONAL INSTITUTE OF ALLERGY AND INFECTIOUS DISEASES · PI ZHOU, TONGQING · 2009 to 2025
$21.5M
Rational Immunogen Design Using Computational MethodsZICAI005114 · NIAID · NATIONAL INSTITUTE OF ALLERGY AND INFECTIOUS DISEASES · PI RAWI, REDA · 2010 to 2025
$4.3M
Computational Tools for Structural AnalysisZICAI005112 · NIAID · NATIONAL INSTITUTE OF ALLERGY AND INFECTIOUS DISEASES · PI RAWI, REDA · 2010 to 2025
$4.1M
bNAb induction by antigenically diverse V1V2 lineage specific SHIVs and SOSIPsR01AI131331 · NIAID · UNIVERSITY OF PENNSYLVANIA · PI SHAW, GEORGE M · 2017 to 2020
$3.2M
Computational Algorithms, Methods, and Tools for Structure-Based Vaccine DesignZICAI005113 · NIAID · NATIONAL INSTITUTE OF ALLERGY AND INFECTIOUS DISEASES · PI KWONG, PETER D · 2010 to 2019
$2.5M
Discovery of a Novel Immune Response to the 5' Leader of HIV-1F30AI112426 · NIAID · UNIVERSITY OF PENNSYLVANIA · PI KREIDER, EDWARD · 2014 to 2015
$76k
NIAID NIH HHS F30 AI112426NIAID NIH HHS P01 AI131251NIAID NIH HHS R01 AI131331NIAID NIH HHS UM1 AI100645
6 · The paper itself

Abstract

Densely arranged N-linked glycans shield the HIV-1 envelope (Env) trimer from antibody recognition. Strain-specific breaches in this shield (glycan holes) can be targets of vaccine-induced neutralizing antibodies that lack breadth. To understand the interplay between glycan holes and neutralization breadth in HIV-1 infection, we developed a sequence- and structure-based approach to identify glycan holes for individual Env sequences that are shielded in most M-group viruses. Applying this approach to 12 longitudinally followed individuals, we found that transmitted viruses with more intact glycan shields correlated with development of greater neutralization breadth. Within 2 years, glycan acquisition filled most glycan holes present at transmission, indicating escape from hole-targeting neutralizing antibodies. Glycan hole filling generally preceded the time to first detectable breadth, although time intervals varied across hosts. Thus, completely glycan-shielded viruses were associated with accelerated neutralization breadth development, suggesting that Env immunogens with intact glycan shields may be preferred components of AIDS vaccines.

Indexed as

Antibodies, NeutralizingComputational BiologyConserved Sequenceenv Gene Products, Human Immunodeficiency VirusHEK293 CellsHIV-1HumansKineticsModels, MolecularNeutralization TestsPolysaccharidesAntibodies, Neutralizingenv Gene Products, Human Immunodeficiency VirusPolysaccharidesglycan shieldHIV-1 envelopeneutralizing antibodiestransmitted foundervaccine design

Identifiers

PMID30355496
PMCPMC6426304
OpenAlexW2896671589

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

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.