aBayesQR: A Bayesian Method for Reconstruction of Viral Populations Characterized by Low Diversity

Journal of computational biology: A journal of computational molecular cell biology

SoyeonAhn¹ 

关键词: Bayesian inference;    hierarchical clustering;    low diversity;    viral quasispecies;   

DOI  :  10.1089/cmb.2017.0249

学科分类：生物科学（综合）

来源: Mary Ann Liebert, Inc. Publishers

【 摘 要 】

RNA viruses replicate with high mutation rates, creating closely related viral populations. The heterogeneous virus populations, referred to as viral quasispecies, rapidly adapt to environmental changes thus adversely affecting efficiency of antiviral drugs and vaccines. Therefore, studying the underlying genetic heterogeneity of viral populations plays a significant role in the development of effective therapeutic treatments. Recent high-throughput sequencing technologies have provided invaluable opportunity for uncovering the structure of quasispecies populations. However, accurate reconstruction of viral quasispecies remains difficult due to limited read lengths and presence of sequencing errors. The problem is particularly challenging when the strains in a population are highly similar, that is, the sequences are characterized by low mutual genetic distances, and further exacerbated if some of those strains are relatively rare; this is the setting where state-of-the-art methods struggle.

【 授权许可】

Unknown