Author: Wassenaar, Trudy M.; Jun, Se-Ran; Robeson, Michael; Ussery, David W.
Title: Comparative genomics of hepatitis A virus, hepatitis C virus, and hepatitis E virus provides insights into the evolutionary history of Hepatovirus species Document date: 2019_11_19
ID: 3hayxyuk_16
Snippet: The genomes were aligned by MAFFT (Yamada, Tomii, & Katoh, 2016) , and FastTree was used to build phylogenetic maximum-likelihood (ML) trees (Price, Dehal, & Arkin, 2009 ). This infers approximately maximum-likelihood phylogenetic trees and is much faster than other algorithms; we used the generalized time-reversible (GTR) model of nucleotide evolution and the Shimodaira-Hasegawa test for statistical confidence of internal nodes. Information on g.....
Document: The genomes were aligned by MAFFT (Yamada, Tomii, & Katoh, 2016) , and FastTree was used to build phylogenetic maximum-likelihood (ML) trees (Price, Dehal, & Arkin, 2009 ). This infers approximately maximum-likelihood phylogenetic trees and is much faster than other algorithms; we used the generalized time-reversible (GTR) model of nucleotide evolution and the Shimodaira-Hasegawa test for statistical confidence of internal nodes. Information on genotypes and subtypes that were included in GenBank annotations was used to map these on the trees. For visual representation, the HCV and HEV trees are shown after collapsing branches at 90% identity.
Search related documents:
Co phrase search for related documents- GenBank annotation and ML tree: 1
- HEV tree and phylogenetic tree: 1, 2
- internal node and maximum likelihood: 1
- internal node and phylogenetic tree: 1
Co phrase search for related documents, hyperlinks ordered by date