Computational protocol: Epidemiology of Hepatitis A Virus Infections, Germany, 2007–2008

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Protocol publication

[…] Sequences were processed by using Lasergene SeqMan Pro software (DNASTAR, Inc., Madison, WI, USA), aligned by using the ClustalW algorithm (), and optimized manually. Phylogenetic trees were constructed by using all available HAV sequences from obtained HAV IgM–positive samples (including HAV sequences from cases not reported). Sequence statistical and phylogenetic analyses were conducted by using MEGA4 (). Sequences obtained are referenced in GenBank under accession nos. EU416232–EU416273 and EU825848–EU825918. For statistical analysis, we used Microsoft Excel 2003 (Microsoft, Redmond, WA, USA), SPSS version 15.0 (SPSS Inc., Chicago, IL, USA), and STATA version 10.1 (StataCorp, College Station, TX, USA). […]

Pipeline specifications

Software tools DNASTAR Molecular Biology Suite, Clustal W, MEGA
Application Phylogenetics
Organisms Hepatovirus A, Homo sapiens
Diseases Hepatitis B, Infection, Chemical and Drug Induced Liver Injury