Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

Recursive partitioning models for linkage in COGA data.

Wei Xu1, Chelsea Taylor, Justin Veenstra

  • 1Genetics and Genomic Biology, Hospital for Sick Children, Toronto, Ontario, Canada. wxu@utstat.toronto.edu

BMC Genetics
|February 3, 2006
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Replicability of multivariate brain-behaviour associations depends on clinical profile.

Communications biology·2026
Same author

Co-occurring rare germline DNA repair gene variants in BRCA1/BRCA2 implicated hereditary breast cancer families.

NPJ breast cancer·2026
Same author

Nature vs nurture of glucose homeostasis trajectories in children from the ALSPAC study.

Diabetologia·2026
Same author

Accommodating the Analysis Model in Multiple Imputation for the Weibull Mixture Cure Model: Performance Under Penalized Likelihood.

Statistics in medicine·2026
Same author

Development and validation of a trans-ancestry polygenic risk score for type 1 diabetes.

Diabetologia·2026
Same author

KDM5C and KDM5D influence DNA methylation in adult mouse liver.

Biology of sex differences·2026
Same journal

Geographic distribution of sex chromosome polymorphism in Anastrepha fraterculus sp. 1 from Argentina.

BMC genetics·2020
Same journal

Development and characterization of a pupal-colour based genetic sexing strain of Anastrepha fraterculus sp. 1 (Diptera: Tephritidae).

BMC genetics·2020
Same journal

Improvement on the genetic engineering of an invasive agricultural pest insect, the cherry vinegar fly, Drosophila suzukii.

BMC genetics·2020
Same journal

Precise single base substitution in the shibire gene by CRISPR/Cas9-mediated homology directed repair in Bactrocera tryoni.

BMC genetics·2020
Same journal

Climate stress resistance in male Queensland fruit fly varies among populations of diverse geographic origins and changes during domestication.

BMC genetics·2020
Same journal

Genetic structure and symbiotic profile of worldwide natural populations of the Mediterranean fruit fly, Ceratitis capitata.

BMC genetics·2020
See all related articles

A novel recursive-partitioning (RP) algorithm identified gene x environment interactions for linkage analysis. This data-mining method revealed suggestive linkage regions on multiple chromosomes, associated with sex and age at onset.

Area of Science:

  • Genetics
  • Biostatistics
  • Data Mining

Background:

  • Identifying gene x environment interactions is crucial for understanding complex diseases.
  • Linkage analysis traditionally struggles to detect heterogeneity across subgroups.
  • Existing methods may not effectively pinpoint specific environmental factors influencing genetic linkage.

Purpose of the Study:

  • To develop and validate a recursive-partitioning (RP) algorithm for detecting gene x environment interactions in linkage analysis.
  • To identify phenotype and covariate groupings that interact with evidence for genetic linkage.
  • To find evidence for linkage heterogeneity across covariate-defined subgroups.

Main Methods:

  • Developed a recursive-partitioning (RP) algorithm utilizing genotype and covariate data from affected relative pairs.

Related Experiment Videos

  • Adapted a likelihood-ratio based test of linkage within a recursive partitioning framework.
  • Employed cross-validation for optimal tree size selection and bootstrap sampling for robust tree structure.

    • Main Results:

    • Nonparametric linkage tests using GENEHUNTER showed no suggestive linkage regions.
    • The RP model identified suggestive linkage regions on chromosomes 2, 4, 6, 14, and 20.
    • Associated covariates, including sex and age at onset, were detected by the RP model.

    Conclusions:

    • The recursive-partitioning algorithm effectively detects gene x environment interactions and linkage heterogeneity.
    • This data-mining approach enhances the power of linkage analysis by considering subgroup-specific effects.
    • The findings highlight the importance of covariates like sex and age at onset in genetic linkage studies.