QUENTIN: reconstruction of disease transmissions from viral quasispecies genomic data.

ABSTRACT:

Motivation

Genomic analysis has become one of the major tools for disease outbreak investigations. However, existing computational frameworks for inference of transmission history from viral genomic data often do not consider intra-host diversity of pathogens and heavily rely on additional epidemiological data, such as sampling times and exposure intervals. This impedes genomic analysis of outbreaks of highly mutable viruses associated with chronic infections, such as human immunodeficiency virus and hepatitis C virus, whose transmissions are often carried out through minor intra-host variants, while the additional epidemiological information often is either unavailable or has a limited use.

Results

The proposed framework QUasispecies Evolution, Network-based Transmission IN

SUBMITTER: Skums P 

PROVIDER: S-EPMC6355096 | biostudies-literature | 2018 Jan

REPOSITORIES: biostudies-literature