Influenza Classification Suite: An automated Galaxy workflow for rapid influenza sequence analysis. Issue 3 (16th February 2020)

• Record Type: Journal Article
• Authors: Eisler, Diane; Fornika, Dan; Tindale, Lauren C.; Chan, Tracy; Sabaiduc, Suzana; Hickman, Rebecca; Chambers, Catharine; Krajden, Mel; Skowronski, Danuta M.; Jassem, Agatha; Hsiao, William
• Is Part Of: Influenza and other respiratory viruses. Volume 14:Issue 3(2020)
• Page Start: 358
• Page End: 362
• Publication Date: 2020-02-16
• Subjects: data analysis -- Galaxy -- genomics -- Influenza -- workflow; Influenza -- Periodicals; Respiratory infections -- Periodicals; Virus diseases -- Periodicals; Influenza, Human -- Periodicals; Respiratory Tract Diseases -- Periodicals; Virus Diseases -- Periodicals; Grippe -- Périodiques; Appareil respiratoire -- Infections -- Périodiques; Maladies à virus -- Périodiques; 616.203
• DOI: 10.1111/irv.12722
• Languages: English
• ISSNs: 1750-2640

Abstract

Abstract: Influenza viruses continually evolve to evade population immunity, and the different lineages are assigned into clades based on shared mutations. We have developed a publicly available computational workflow, the Influenza Classification Suite, for rapid clade mapping of sequenced influenza viruses. This suite provides a user‐friendly workflow implemented in Galaxy to automate clade calling and antigenic site extraction. Workflow input includes clade definition and amino acid index array files, which can be customized to identify any clades of interest. The Influenza Classification Suite provides rapid, high‐resolution understanding of circulating influenza strain evolution to inform influenza vaccine effectiveness and the need for potential vaccine reformulation.