Abstract

In this grant, we propose to focus further work on computational problems in gene mapping studies, with particular emphasis on finding genes for complex traits combining linkage and linkage disequilibrium information. Combining research forces at both the University of Southern California (USC) and the Fred Hutchinson Cancer Research Center (FHCRC), we propose to explore the following approaches for joint linkage and linkage disequilibrium analysis: Maximum likelihood methods using both empirical models for disequilibrium and population genetics models for isolated and admixed populations. Efficient Estimating Equations (EEE) methods for semi-parametric analysis MCMC methods for larger pedigrees than are currently feasible.

  Funding Agency

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Project (R01)
Project #
5R01GM058897-03
Application #
6498753
Study Section
Epidemiology and Disease Control Subcommittee 2 (EDC)
Program Officer
Eckstrand, Irene A
Project Start
2000-02-01
Project End
2004-01-31
Budget Start
2002-02-01
Budget End
2003-01-31
Support Year
3
Fiscal Year
2002
Total Cost
$493,099
Indirect Cost

  Institution

Name
University of Southern California
Department
Public Health & Prev Medicine
Type
Schools of Medicine
DUNS #
041544081
City
Los Angeles
State
CA
Country
United States
Zip Code
90089

  Publications

Kerber, Richard A; Amos, Christopher I; Yeap, Beow Y et al. (2008) Design considerations in a sib-pair study of linkage for susceptibility loci in cancer. BMC Med Genet 9:64
Kraft, Peter; Stram, Daniel O (2007) Re: the use of inferred haplotypes in downstream analysis. Am J Hum Genet 81:863-5;author reply 865-6
Wang, Hansong; Thomas, Duncan C; Pe'er, Itsik et al. (2006) Optimal two-stage genotyping designs for genome-wide association scans. Genet Epidemiol 30:356-68
Stram, Daniel O (2005) Software for tag single nucleotide polymorphism selection. Hum Genomics 2:144-51
Innan, Hideki; Zhang, Kangyu; Marjoram, Paul et al. (2005) Statistical tests of the coalescent model based on the haplotype frequency distribution and the number of segregating sites. Genetics 169:1763-77
Millstein, Joshua; Siegmund, Kimberly D; Conti, David V et al. (2005) Testing association and linkage using affected-sib-parent study designs. Genet Epidemiol 29:225-33
Xie, Rongrong; Stram, Daniel O (2005) Asymptotic equivalence between two score tests for haplotype-specific risk in general linear models. Genet Epidemiol 29:166-70
Millstein, Joshua; Siegmund, Kimberly D; Conti, David V et al. (2005) Identifying susceptibility genes by using joint tests of association and linkage and accounting for epistasis. BMC Genet 6 Suppl 1:S147
Bergemann, T L; Laws, R J; Quiaoit, F et al. (2004) A statistically driven approach for image segmentation and signal extraction in cDNA microarrays. J Comput Biol 11:695-713
Stram, Daniel O (2004) Tag SNP selection for association studies. Genet Epidemiol 27:365-74

Showing the most recent 10 out of 38 publications