Computational protocol: Virological investigation of four outbreaks of influenza B reassortants in the northern region of Taiwan from October 2006 to February 2007

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Protocol publication

[…] Alignment of the respective 739 and 251 base pairs of HA and NA gene sequences was performed using the DNASTAR MegAlign clustal method. Phylogenetic trees were constructed using the neighbor-joining method based on Kimura's 2-parameter distance matrix with 1000 bootstrap replicates, using the MEGA (version 3.0) and PHYLIP (version 3.6) software packages [-]. We used MEGA for construction of neighbor-joining trees and PHYLIP for parsimony and maximum-likelihood methods to verify the topology of taxas shown in the trees. In this study, all trees are shown as the neighbor-joining tree from MEGA. […]

Pipeline specifications

Software tools MEGA, PHYLIP
Application Phylogenetics
Organisms Homo sapiens
Diseases Hepatitis B, Respiratory Tract Infections
Chemicals Hemagglutinins