Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Search research articles

Related Experiment Videos

Modeling exposures for DNA methylation profiles.

Kimberly D Siegmund¹, A Joan Levine, Jing Chang

¹Department of Preventive Medicine, Keck School of Medicine, University of Southern California, 1540 Alcazar Street, CHP 220, Los Angeles, CA 90089, USA. kims@usc.edu

Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology

|March 16, 2006

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

Atomic Force Microscopy (AFM)-Based Metrology for Advanced Etching in Three-Dimensional Integrated Circuits.

Micromachines·2026

Same author

Effects of Two Buckwheat Varieties on the Behavioral Choice of <i>Frankliniella intonsa</i> in Sunflower Field.

Insects·2026

Same author

Lacticaseibacillus rhamnosus GR-1 Alleviates Escherichia coli-induced Autophagy-dependent Ferroptosis in Bovine Endometrial Epithelial Cells via FOXO1 Signaling.

Probiotics and antimicrobial proteins·2026

Same author

Antimicrobial peptides for bacterial infections and their biomedical applications.

Discover nano·2026

Same author

Design of polar XC<sub>3</sub> (X = P, As, Sb, Bi) monolayers with coupled bandgap, polarization, and optical responses.

RSC advances·2026

Same author

Distinct microbial and functional alterations across skin sites and disease severity in pediatric atopic dermatitis: a prospective study.

Frontiers in medicine·2026

Same journal

Genetically proxied inhibition of cholesterol-lowering drug targets and survival in HPV-positive and non-HPV driven head and neck cancer: a multicentre MR study.

Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology·2026

Same journal

Retraction: Menstrual Factors, Reproductive History and Liver Cancer Risk: Findings from a Prospective Cohort Study in Chinese Women.

Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology·2026

Same journal

Optimizing the Uptake and Completion of the Cervical Cancer Screening Continuum: Opportunity Knocks, Including at Home.

Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology·2026

Same journal

Sex Differences in Cancer Stage at Diagnosis of Nonreproductive Solid Organ Tumors in the United States, 2015 to 2022.

Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology·2026

Same journal

Evaluation of the 4Kscore in EPIC: Reply.

Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology·2026

Same journal

Evaluation of the 4Kscore in EPIC: Letter.

Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology·2026

See all related articles

The extended finite mixture model provides unbiased estimates for the association between red blood cell folate and DNA methylation subtypes in colorectal adenomas, unlike the two-phase approach which can be biased.

Area of Science:

Genetics and Epidemiology
Biostatistics
Molecular Biology

Background:

DNA methylation profiles are increasingly used to identify latent disease subtypes.
Understanding the association between environmental exposures and these subtypes is crucial for disease prevention.
Traditional statistical methods may not adequately account for the complexity of subtype identification.

Purpose of the Study:

To extend the finite mixture model for estimating exposure-disease subtype associations using DNA methylation data.
To compare the performance of the extended finite mixture model with a simpler two-phase approach.
To evaluate the impact of clustering errors on association estimates.

Main Methods:

Finite mixture model extension for DNA methylation data analysis.

Related Experiment Videos

Two-phase approach: DNA methylation clustering followed by logistic regression.

Application to colorectal adenoma data and comparison via simulation studies.

Analysis of odds ratio (OR) and 95% confidence intervals (95% CI) for exposure-subtype associations.

Main Results:

Different analytical approaches yielded varying estimates for the association between RBC folate and DNA methylation subtypes in colorectal adenomas.
The two-phase approach showed biased OR estimates and underestimated standard errors when cluster assignments contained errors.
The extended finite mixture model provided unbiased OR estimates with correct SEs, but may require larger sample sizes.
Simulation studies confirmed that differences emerge when cluster analysis is noisy.

Conclusions:

The extended finite mixture model is preferred over the two-phase approach when cluster identification is uncertain, ensuring valid estimation of the odds ratio and confidence intervals.
The two-phase approach is susceptible to bias and underestimated variability when DNA methylation clustering is imprecise.
Accurate statistical modeling is essential for reliable inference in molecular epidemiology studies.