Evidence map›Paper›PMID 30770839›Full record

ArticleScientific reports2019

Reverse immunodynamics: a new method for identifying targets of protective immunity.

Katrina J Spensley, Paul S Wikramaratna, Bridget S Penman, Andrew Walker, Adrian L Smith, Oliver G Pybus, Létitia Jean, Sunetra Gupta, José Lourenço

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
0.7field-weighted citation impact, top 26% 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

3 citing papers in PubMed, 3 citations in OpenAlex.

  1. Article
  2. Article
  3. Antibodies Against theFrontiers in cellular and infection microbiology · 2021
    Article
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

9 authors at 4 institutions in 1 country.

Katrina J SpensleyImperial College London, London, W2 1PG, UK.
Paul S WikramaratnaInstitute of Evolutionary Biology, University of Edinburgh, Edinburgh, EH9 3JT, UK.
Bridget S PenmanSchool of Life Sciences, University of Warwick, Coventry, CV4 7AL, UK.
Andrew WalkerDepartment of Zoology, University of Oxford, Oxford, OX1 3PS, UK.
Adrian L SmithDepartment of Zoology, University of Oxford, Oxford, OX1 3PS, UK.
Oliver G PybusDepartment of Zoology, University of Oxford, Oxford, OX1 3PS, UK.
Létitia JeanThe Sir William Dunn School of Pathology, University of Oxford, Oxford, OX1 3RE, UK.
Sunetra GuptaDepartment of Zoology, University of Oxford, Oxford, OX1 3PS, UK.
José LourençoDepartment of Zoology, University of Oxford, Oxford, OX1 3PS, UK. jose.lourenco@zoo.ox.ac.uk.ORCID 0000-0002-9318-2581
University of Oxford · GBImperial College London · GBUniversity of Edinburgh · GBUniversity of Warwick · GB

Funding

European Research Council 268904
6 · The paper itself

Abstract

Despite a dramatic increase in our ability to catalogue variation among pathogen genomes, we have made far fewer advances in using this information to identify targets of protective immunity. Epidemiological models predict that strong immune selection can cause antigenic variants to structure into genetically discordant sets of antigenic types (e.g. serotypes). A corollary of this theory is that targets of immunity may be identified by searching for non-overlapping associations of amino acids among co-circulating antigenic variants. We propose a novel population genetics methodology that combines such predictions with phylogenetic analyses to identify genetic loci (epitopes) under strong immune selection. We apply this concept to the AMA-1 protein of the malaria parasite Plasmodium falciparum and find evidence of epitopes among certain regions of low variability which could render them ideal vaccine candidates. The proposed method can be applied to a myriad of multi-strain pathogens for which vast amounts of genetic data has been collected in recent years.

Indexed as

Selection, GeneticAntigens, ProtozoanEpitopesGenetics, PopulationGenotypeMembrane ProteinsPlasmodium falciparumProtozoan ProteinsAntigens, Protozoanapical membrane antigen I, PlasmodiumEpitopesMembrane ProteinsProtozoan Proteins

Identifiers

PMID30770839
PMCPMC6377634
OpenAlexW2951278378

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.