JSM 2004 - Toronto

Abstract #301423

This is the preliminary program for the 2004 Joint Statistical Meetings in Toronto, Canada. Currently included in this program is the "technical" program, schedule of invited, topic contributed, regular contributed and poster sessions; Continuing Education courses (August 7-10, 2004); and Committee and Business Meetings. This on-line program will be updated frequently to reflect the most current revisions.

To View the Program:
You may choose to view all activities of the program or just parts of it at any one time. All activities are arranged by date and time.

The views expressed here are those of the individual authors
and not necessarily those of the ASA or its board, officers, or staff.

Back to main JSM 2004 Program page
Activity Number: 184
Type: Topic Contributed
Date/Time: Tuesday, August 10, 2004 : 8:30 AM to 10:20 AM
Sponsor: Section on Statistics in Epidemiology
Abstract - #301423
Title: Power of SNP-by-SNP vs. Haplotype-based Analysis of Case Control Association Studies
Author(s): Philip S. Rosenberg*+ and Anney Che and Derek Gildea and Monica Ter-Minassian and Bingshu E. Chen
Companies: National Cancer Institute and National Cancer Institute and National Cancer Institute and National Cancer Institute and National Cancer Institute
Address: 6120 Executive Blvd., Bethesda, MD, 20852,
Keywords: case control study ; false discovery rate ; genetic epidemiology ; multiple comparisons procedures ; single nucleotide polymorphisms
Abstract:

The risk of developing a complex disease may depend on variants in several genes that each exerts a small effect. Case control studies can investigate SNPs or haplotypes in a candidate gene; we assess the power of SNP-by-SNP vs. haplotype analysis. We model scenarios where genotypes for all SNPs in a candidate gene, and haplotypes, are available. We incorporate empiric patterns of linkage disequilibrium of SNPs using a nine-gene panel: CASP8, CASP10, CFLAR, GAD2, H19, INS, SDF1, TCF8, and CTLA4. Disease susceptibility follows a prospective linear logistic model; we consider dominant, co-dominant, and recessive allelic effects. We study three procedures: SNP-by-SNP analysis with p values adjusted for multiple comparisons using Benjamini-Hochberg False Discovery Rate (FDR); Haplotype-based logistic regression; and Omnibus Permutation Test of SNP-by-SNP and haplotype analysis. When disease risk is conferred by a SNP, we find that SNP-by-SNP analysis with FDR is superior to haplotype analysis. Conversely, haplotype analysis can be superior when disease risk is conferred by a haplotype. The Omnibus Test appears to have excellent performance because it tracks the most powerful procedure.

  • The address information is for the authors that have a + after their name.
  • Authors who are presenting talks have a * after their name.

Back to the full JSM 2004 program

JSM 2004 For information, contact jsm@amstat.org or phone (888) 231-3473. If you have questions about the Continuing Education program, please contact the Education Department.
Revised March 2004