Semiparametric functional mapping of quantitative trait loci governing long-term HIV dynamics

Song Wu, Jie Yang, Rongling Wu

Research output: Contribution to journalArticle

12 Citations (Scopus)

Abstract

Motivation: Functional mapping has proven to be powerful for characterizing quantitative trait loci (QTL) that control complex dynamic traits. More recently, functional mapping has been extended to identify the host QTL responsible for HIV dynamics by incorporating a parametric bi-exponential function for earlier stages of viral load trajectories. However, existing functional mapping cannot be used to map long-term HIV dynamics because no mathematical functions are available for later stages of HIV dynamic changes. Results: We derived a statistical model for functional mapping of dynamic QTL through characterizing HIV load trajectories during a long-term period semiparametrically. The new model was constructed within the maximum likelihood framework and implemented with the EM-simplex algorithm. It allows for the test of differences in the genetic control of short- and long-term HIV dynamics and the characterization of the effects of viral-host genome interaction. Extensive simulation studies have been performed to test the statistical behavior of this model. The new model will provide an important tool for genetic and genomic studies of human complex diseases like HIV/AIDS and their pathological progression.

Original languageEnglish (US)
Pages (from-to)i569-i576
JournalBioinformatics
Volume23
Issue number13
DOIs
StatePublished - Jul 1 2007

Fingerprint

Quantitative Trait Loci
HIV
Statistical Models
Trajectory
Simplex Algorithm
Trajectories
Complex Dynamics
EM Algorithm
Internal-External Control
Progression
Viral Genome
Exponential functions
Statistical Model
Maximum Likelihood
Genomics
Viral Load
Genome
Maximum likelihood
Simulation Study
Model

All Science Journal Classification (ASJC) codes

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

Cite this

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Semiparametric functional mapping of quantitative trait loci governing long-term HIV dynamics. / Wu, Song; Yang, Jie; Wu, Rongling.

In: Bioinformatics, Vol. 23, No. 13, 01.07.2007, p. i569-i576.

Research output: Contribution to journalArticle

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