A binning tool to reconstruct viral haplotypes from assembled contigs.

ABSTRACT:

Background

Infections by RNA viruses such as Influenza, HIV still pose a serious threat to human health despite extensive research on viral diseases. One challenge for producing effective prevention and treatment strategies is high intra-species genetic diversity. As different strains may have different biological properties, characterizing the genetic diversity is thus important to vaccine and drug design. Next-generation sequencing technology enables comprehensive characterization of both known and novel strains and has been widely adopted for sequencing viral populations. However, genome-scale reconstruction of haplotypes is still a challenging problem. In particular, haplotype assembly programs often produce contigs rather than full genomes. As a mutation in one gene can mask t

SUBMITTER: Chen J 

PROVIDER: S-EPMC6829986 | biostudies-literature | 2019 Nov

REPOSITORIES: biostudies-literature