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Whole genome single-nucleotide variation profile-based phylogenetic tree building methods for analysis of viral, bacterial and human genomes.

Genomics - 1 Jul 2014

Faison William J, Rostovtsev Alexandre, Castro-Nallar Eduardo, Crandall Keith A, Chumakov Konstantin, Simonyan Vahan, Mazumder Raja

Abstract excerpt

UNLABELLED: Next-generation sequencing data can be mapped to a reference genome to identify single-nucleotide polymorphisms/variations (SNPs/SNVs; called SNPs hereafter). In theory, SNPs can be compared across several samples and the differences can be used to create phylogenetic trees depicting relatedness among the samples. However, in practice this is difficult because currently there is no stand-alone tool...

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PMID: 24930720
DOI: 10.1016/j.ygeno.2014.06.001

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