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

Potential bias in Generalized Estimating Equations linkage methods under incomplete information.

J Lebrec1, H Putter, J C van Houwelingen

  • 1Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, The Netherlands. j.j.p.lebrec@lumc.nl

Genetic Epidemiology
|November 25, 2005
PubMed
Summary

Generalized Estimating Equations (GEE) linkage analysis may be unreliable with partial marker data. Standardized statistics based on identity-by-descent (IBD) sharing offer a more robust alternative for genetic linkage studies.

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

Diagnostic Accuracy of Elastic Deformation for Detecting High Aneurysm Sac Pressure After Endovascular Aneurysm Repair.

Annals of vascular surgery·2025
Same author

Changes in bone marrow fat fraction and immune cell counts in women with cervical cancer treated with primary chemoradiotherapy.

Radiotherapy and oncology : journal of the European Society for Therapeutic Radiology and Oncology·2025
Same author

Standard versus Pre-emptive Antibiotic Treatment to Reduce the Rate of Infectious Outcomes after Whipple resection (SPARROW): a study protocol for a multicentre, open-label, randomised controlled trial.

Trials·2025
Same author

Results from the UNITED study: a multicenter study validating the prognostic effect of the tumor-stroma ratio in colon cancer.

ESMO open·2024
Same author

Corrigendum to "Authors' reply-Does the RAPIDO trial suggest a benefit of post-operative chemotherapy after preoperative chemoradiation in rectal cancer? No, it does not": [ESMO Open 8 (2023) 101645].

ESMO open·2023
Same author

Authors' reply-Does the RAPIDO trial suggest a benefit of post-operative chemotherapy after preoperative chemoradiation in rectal cancer? No, it does not.

ESMO open·2023

Area of Science:

  • Genetics
  • Statistical genetics
  • Bioinformatics

Background:

  • The Generalized Estimating Equations (GEE) method is commonly used for genetic linkage analysis.
  • The validity of GEE relies on the assumption of fully polymorphic markers providing complete identity-by-descent (IBD) information.

Purpose of the Study:

  • To investigate the impact of partial IBD information on GEE-based linkage analysis.
  • To identify conditions where GEE estimates may become inconsistent.
  • To propose an alternative statistical approach.

Main Methods:

  • Theoretical analysis of GEE methodology under partial marker information.
  • Computer simulations to evaluate GEE performance with varying IBD data quality.
  • Development and validation of standardized statistics based on IBD sharing.

Related Experiment Videos

Main Results:

  • Partial IBD information can lead to inconsistent locus location and gene effect estimates in GEE.
  • GEE parameter estimates and confidence intervals are unreliable in genomic regions with sparse or abruptly changing IBD data.
  • Standardized statistics utilizing IBD sharing demonstrate validity even with imperfect marker information.

Conclusions:

  • Researchers must exercise caution when applying GEE linkage methods with incomplete marker data.
  • Areas with sparse or rapidly changing IBD information are particularly problematic for GEE.
  • Standardized IBD sharing statistics provide a reliable alternative for genetic linkage analysis.