Evidence map›Paper›PMID 31275610›Full record

ArticleVirus evolution2019

Influenza passaging annotations: what they tell us and why we should listen.

Cory D DuPai, Claire D McWhite, Catherine B Smith, Rebecca Garten, Sebastian Maurer-Stroh, Claus O Wilke

Abstract read
In one paragraph

Article in Virus evolution, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 citing papers in PubMed.

  1. Article
  2. Article
  3. Human Organs-on-Chips for Virology.Trends in microbiology · 2020
    Review
  4. Article
  5. 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

6 authors.

Cory D DuPaiInstitute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX, USA.
Claire D McWhiteInstitute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX, USA.
Catherine B SmithInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, GA, USA.
Rebecca GartenInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, GA, USA.
Sebastian Maurer-StrohBiomolecular Function Discovery Division, Bioinformatics Institute (BII), Agency for Science, Technology and Research (ASTAR), Singapore.
Claus O WilkeInstitute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX, USA.ORCID 0000-0002-7470-9261

Funding

The biophysical basis of translational selectionR01GM088344 · NIGMS · UNIVERSITY OF TEXAS AT AUSTIN · PI BARRICK, JEFFREY EVAN, WILKE, CLAUS O · 2009 to 2023
$3.5M
Identifying Mutations that Promote Microbial EvolvabilityK99GM087550 · NIGMS · MICHIGAN STATE UNIVERSITY · PI BARRICK, JEFFREY EVAN · 2009 to 2010
$180k
NIGMS NIH HHS K99 GM087550NIGMS NIH HHS R01 GM088344
6 · The paper itself

Abstract

Influenza databases now contain over 100,000 worldwide sequence records for strains influenza A(H3N2) and A(H1N1). Although these data facilitate global research efforts and vaccine development practices, they also represent a stumbling block for researchers because of their confusing and heterogeneous annotation. Unclear passaging annotations are particularly concerning given the recent work highlighting the presence and risk of false adaptation signals introduced by cell passaging of viral isolates. With this in mind, we aim to provide a concise outline of why viruses are passaged, a clear overview of passaging annotation nomenclature currently in use, and suggestions for a standardized nomenclature going forward. Our hope is that this summary will empower researchers and clinicians alike to more easily understand a virus sample's passage history when analyzing influenza sequences.

Indexed as

H1N1H3N2influenza viruspassaging adaptations

Identifiers

PMID31275610
PMCPMC6599686

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.