Evidence map›Paper›PMID 27795346›Full record

ArticleJournal of clinical microbiology2017

A Pyrosequencing-Based Approach to High-Throughput Identification of Influenza A(H3N2) Virus Clades Harboring Antigenic Drift Variants.

Vasiliy P Mishin, Tatiana Baranovich, Rebecca Garten, Anton Chesnokov, Anwar I Abd Elal, Michelle Adamczyk, Jennifer LaPlante, Kirsten St George, Alicia M Fry, John Barnes and 5 more

Abstract readEvaluation Study
PubMed Full text at PMC Publisher
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 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. The Household Influenza Vaccine Effectiveness Study: Lack of Antibody Response and Protection Following Receipt of 2014-2015 Influenza Vaccine.Clinical infectious diseases : an official publication of the Infectious Diseases Society of America · 2017
    Article
  6. 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

15 authors.

Vasiliy P MishinInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA.
Tatiana BaranovichInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA.
Rebecca GartenInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA.
Anton ChesnokovInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA.
Anwar I Abd ElalInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA.
Michelle AdamczykInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA.
Jennifer LaPlanteWadsworth Center, New York State Department of Health (NYSDOH), Albany, New York, USA.
Kirsten St GeorgeWadsworth Center, New York State Department of Health (NYSDOH), Albany, New York, USA.ORCID 0000-0001-5168-763X
Alicia M FryInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA.
John BarnesInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA.
Stephanie C ChesterAssociation of Public Health Laboratories, Silver Spring, Maryland, USA.
Xiyan XuInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA.
Jacqueline M KatzInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA.
David E WentworthInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA.
Larisa V GubarevaInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention (CDC), Collaborating Center for Surveillance, Epidemiology and Control of Influenza, Atlanta, Georgia, USA lgubareva@cdc.gov.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The rapid evolution of influenza A(H3N2) viruses necessitates close monitoring of their antigenic properties so the emergence and spread of antigenic drift variants can be rapidly identified. Changes in hemagglutinin (HA) acquired by contemporary A(H3N2) viruses hinder antigenic characterization by traditional methods, thus complicating vaccine strain selection. Sequence-based approaches have been used to infer virus antigenicity; however, they are time consuming and mid-throughput. To facilitate virological surveillance and epidemiological studies, we developed and validated a pyrosequencing approach that enables identification of six HA clades of contemporary A(H3N2) viruses. The identification scheme of viruses of the H3 clades 3C.2, 3C.2a, 3C.2b, 3C.3, 3C.3a, and 3C.3b is based on the interrogation of five single nucleotide polymorphisms (SNPs) within three neighboring HA regions, namely 412 to 431, 465 to 481, and 559 to 571. Two bioinformatics tools, IdentiFire (Qiagen) and FireComb (developed in-house), were utilized to expedite pyrosequencing data analysis. The assay's analytical sensitivity was 10 focus forming units, and respiratory specimens with threshold cycle (C

Indexed as

Genetic DriftHigh-Throughput Nucleotide SequencingGenotyping TechniquesHemagglutinin Glycoproteins, Influenza VirusHumansInfluenza A Virus, H3N2 SubtypeInfluenza, HumanPolymorphism, Single NucleotideSensitivity and SpecificityHemagglutinin Glycoproteins, Influenza VirusA(H3N2)genotypinginfluenzapyrosequencing

Identifiers

PMID27795346
PMCPMC5228225

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.