Selected article for: "likelihood phylogenetic tree and maximum likelihood phylogenetic tree"
Author: Manish Tiwari; Divya Mishra
Title: Investigating the genomic landscape in novel coronavirus (2019-nCoV) genomes to identify non-synonymous mutations for use in diagnosis and drug design
  • Document date: 2020_4_18
    • ID: f0z8gcws_6
    Snippet: To analyse the phylogenetic relationship between different coronaviruses, 591 genomes were downloaded from Global Initiative on Sharing All Influenza Database (GISAID) (https://www.gisaid.org/). The hCoV is an RNA virus and the deposited sequences are in DNA format. To prevent anomaly in the data represented, complete genomes and only high coverage datasets were utilized. The genomic sequences were aligned using MUSCLE program ( v 3 . 8 . 3 1 ) (.....
    Document: To analyse the phylogenetic relationship between different coronaviruses, 591 genomes were downloaded from Global Initiative on Sharing All Influenza Database (GISAID) (https://www.gisaid.org/). The hCoV is an RNA virus and the deposited sequences are in DNA format. To prevent anomaly in the data represented, complete genomes and only high coverage datasets were utilized. The genomic sequences were aligned using MUSCLE program ( v 3 . 8 . 3 1 ) (Edgar, 2004) . The alignments were utilized to deduce various nucleotide substitutions and maximum likelihood phylogenetic tree with 1000 bootstrap was constructed by RAxML program (Stamatakis, 2014) . The alignment and tree were visualized using Jalview 2.11.0 (Waterhouse et al., 2009 ) and iTOL respectively (Letunic and Peer, 2007) .

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