Computational protocol: Association of papillomavirus E6 proteins with either MAML1 or E6AP clusters E6 proteins by structure, function, and evolutionary relatedness

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Protocol publication

[…] Multiple protein sequence files were downloaded from the papillomavirus episteme [], alignments were performed with the MUSCLE 3.8.31 program [] using the phylogeny.fr toolset []. The output from MUSCLE was used as input for phylogenetic analysis and graphing using PhyML 3.1/3.0 aLRT [], and tree rendering with TreeDyn 198.3 []. […]

Pipeline specifications

Software tools MUSCLE, Phylogeny.fr, PhyML, TreeDyn
Applications Phylogenetics, Nucleotide sequence alignment
Organisms Human papillomavirus, Homo sapiens, Sus scrofa