HIV classification using the coalescent theory | Zendy

Ingo Bulla | Zendy; Anne-Kathrin Schultz | Zendy; Fabian Schreiber | Zendy; Ming Zhang | Zendy; Thomas Leitner | Zendy; Bette Korber | Zendy; Burkhard Morgenstern | Zendy; Mario Stanke | Zendy

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HIV classification using the coalescent theory

Author(s) -

Ingo Bulla,

Anne-Kathrin Schultz,

Fabian Schreiber,

Ming Zhang,

Thomas Leitner,

Bette Korber,

Burkhard Morgenstern,

Mario Stanke

Publication year - 2010

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btq159

Subject(s) - coalescent theory , argus , phylogenetic tree , markov chain monte carlo , recombination , computer science , bayesian probability , markov chain , bayes' theorem , biology , human immunodeficiency virus (hiv) , computational biology , artificial intelligence , algorithm , genetics , machine learning , gene , immunology , programming language

Existing coalescent models and phylogenetic tools based on them are not designed for studying the genealogy of sequences like those of HIV, since in HIV recombinants with multiple cross-over points between the parental strains frequently arise. Hence, ambiguous cases in the classification of HIV sequences into subtypes and circulating recombinant forms (CRFs) have been treated with ad hoc methods in lack of tools based on a comprehensive coalescent model accounting for complex recombination patterns.

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