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Characterizing the Relationship Between HIV-1 Genotype and Phenotype: Prediction-Based Classification

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This paper establishes a framework for understanding the complex relationships between HIV-1 genotypic markers of resistance to antiretroviral drugs and clinical measures of disease progression. A new classification scheme based on the probabilities of how new patients will respond to antiretroviral therapy given the available data is proposed as a method for distinguishing among groups of viral sequences. This approach draws from existing cluster analysis, discriminant analysis, and recursive partitioning techniques and requires a model relating genotypic characteristics to phenotypic response. A data set of 2746 sequences and the corresponding Indinavir 50% inhibitory concentrations are described and used for illustrative purposes.
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Keywords: Classification; Cluster analysis; Correlated random effects; Discriminant analysis; Genotype; HIV-1; Phenotype; Prediction; Recursive partitioning

Document Type: Research Article

Affiliations: Department of Biostatistics, Harvard School of Public Health, 655 Huntington Avenue, Boston, Massachusetts 02115, U.S.A.

Publication date: 01 March 2002

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