What question did this study set out to answer?

To develop and validate LABEL, a machine learning method for rapid, automated evolutionary lineage classification of influenza gene sequences without sequence alignment or phylogenetic tree construction.

January 23, 2014PLoS ONEOpen Access

LABEL: Fast and Accurate Lineage Assignment with Assessment of H5N1 and H9N2 Influenza A Hemagglutinins

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Authors

SSSamuel S. ShepardNational Center for Immunization and Respiratory Diseases CDC. Todd DavisNational Center for Immunization and Respiratory Diseases JBJustin BahlUniversity of Georgia

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Implication

Bioinformatic study demonstrates rapid and accurate lineage assignment for influenza A hemagglutinins, highlighting utility for molecular surveillance.

Key Points

To develop and validate LABEL, a machine learning method for rapid, automated evolutionary lineage classification of influenza gene sequences without sequence alignment or phylogenetic tree construction.
Integrated profile hidden Markov models and support vector machine training to hierarchically categorize gene sequences according to homology with predefined clades.
Tested the classifier against annotated hemagglutinin sequences of highly pathogenic H5N1 and low-pathogenicity H9N2 avian influenza A viruses using standard and updated clade nomenclatures.
Correctly and rapidly assigned uncharacterized H5 hemagglutinin sequences to established WHO/FAO/OIE evolutionary lineages without manual intervention or tree reconstruction.
Successfully established a modernized clade nomenclature for the H9 hemagglutinin gene and demonstrated fast, robust lineage identification.

Cite This Study

Shepard et al. (2014) studied this question.

synapsesocial.com/papers/6aa7124bc9bd2a04e1812c71 https://doi.org/10.1371/journal.pone.0086921

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Implication

Bioinformatic study demonstrates rapid and accurate lineage assignment for influenza A hemagglutinins, highlighting utility for molecular surveillance.

LABEL: Fast and Accurate Lineage Assignment with Assessment of H5N1 and H9N2 Influenza A Hemagglutinins

Discussion

Member takes

Implication

Key Points

Cite This Study

LABEL: Fast and Accurate Lineage Assignment with Assessment of H5N1 and H9N2 Influenza A Hemagglutinins

Discussion

Member takes

Implication

Key Points

Cite This Study

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