Grant Number:	5R01CA106320-07 Interpret this number
Primary Investigator:	Zhao, Lue Ping
Organization:	Fred Hutchinson Cancer Research Center
Project Title:	Methods for Correlating Snp Haplotypes with Cancer
Fiscal Year:	2007

DESCRIPTION (provided by applicant): The long-term objectives of our research efforts are to develop innovative research design methods and analytic methods for the study of human diseases in the context of maturing genomic technologies (genetic polymorphisms, gene expressions and protein expressions). The primary aims of this proposal are to develop statistical methods and study designs to objectively assess the relationship of genetic polymorphisms in the form of SNPs and haplotypes with disease phenotypes and to investigate the role of gene-environment interactions, believed to play a major role in disease etiology. This objective represents the continuation of our current research project, which focuses on mapping complex diseases. Recent developments in genotyping technologies are revealing interesting local haplotype structures and are continuing to discover many more genetic markers throughout the genome. These provide not only unprecedented opportunities to gain a deeper understanding of disease etiology and to discover biomarkers useful for disease prevention and control, but also present a considerable challenge to the extraction of useful information from the ocean of genomic data now available. While extended pedigrees, nuclear families, sib-pairs have been used in indirect association analyses, direct association analyses may be more efficient and yield sufficient power to detect gene-environment interactions. Therefore, to maximize the power of the association analysis, case-control designs (both matched and unmatched) and cohort study designs will be applied. Methods to be developed will be based on well-established statistical techniques, including: genetic models, estimating equation techniques, likelihood methods, and logistic regression techniques. Where analytical solutions are not possible or computationally prohibitive, bootstrap techniques and Monte Carlo simulation methods will be applied to estimate relevant statistics. A range of statistical methods will be developed, including novel algorithms as necessary, and implemented for dissemination to the research community. Then these methods will be applied data from actual studies for validation and illustration purposes. To ensure the integration of statistics, biology and epidemiology, a team of investigators from multi-disciplinary backgrounds will discuss issues and jointly generate and critique statistical solutions.




Building and validating a prediction model for paediatric type 1 diabetes risk using next generation targeted sequencing of class II HLA genes.
Authors: Zhao L.P. , Carlsson A. , Larsson H.E. , Forsander G. , Ivarsson S.A. , Kockum I. , Ludvigsson J. , Marcus C. , Persson M. , Samuelsson U. , et al. .
Source: Diabetes/metabolism Research And Reviews, 2017 Nov; 33(8), .
EPub date: 2017-09-15 00:00:00.0.
PMID: 28755385
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Deciphering Genome Environment Wide Interactions Using Exposed Subjects Only.
Authors: Zhao L.P. , Fan W. , Goodman G. , Radich J. , Martin P. .
Source: Genetic Epidemiology, 2015 Jul; 39(5), p. 334-46.
PMID: 25694100
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Authors: Zhao L.P. , Huang X. .
Source: Human Genetics, 2013 Jul; 132(7), p. 745-59.
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Sequencing Genes In Silico Using Single Nucleotide Polymorphisms
Authors: Zhang X.C. , Zhang B. , Li S.S. , Huang X. , Hansen J.A. , Zhao L.P. .
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Comparison of Two Methods for Detecting Alternative Splice Variants Using GeneChip(®) Exon Arrays.
Authors: Fan W. , Stirewalt D.L. , Radich J.P. , Zhao L. .
Source: International Journal Of Biomedical Science : Ijbs, 2011 Sep; 7(3), p. 172-80.
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Predicting Multiallelic Genes Using Unphased And Flanking Single Nucleotide Polymorphisms
Authors: Li S.S. , Wang H. , Smith A. , Zhang B. , Zhang X.C. , Schoch G. , Geraghty D. , Hansen J.A. , Zhao L.P. .
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Empirical Evaluations Of Analytical Issues Arising From Predicting Hla Alleles Using Multiple Snps
Authors: Zhang X.C. , Li S.S. , Wang H. , Hansen J.A. , Zhao L.P. .
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Empirical Vs Bayesian Approach For Estimating Haplotypes From Genotypes Of Unrelated Individuals
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Toward Understanding Mhc Disease Associations: Partial Resequencing Of 46 Distinct Hla Haplotypes
Authors: Smith W.P. , Vu Q. , Li S.S. , Hansen J.A. , Zhao L.P. , Geraghty D.E. .
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Hla-e, Hla-f, And Hla-g Polymorphism: Genomic Sequence Defines Haplotype Structure And Variation Spanning The Nonclassical Class I Genes
Authors: Pyo C.W. , Williams L.M. , Moore Y. , Hyodo H. , Li S.S. , Zhao L.P. , Sageshima N. , Ishitani A. , Geraghty D.E. .
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A Fine-scale Linkage-disequilibrium Measure Based On Length Of Haplotype Sharing
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Genetic Variation In Bactericidal/permeability-increasing Protein Influences The Risk Of Developing Rapid Airflow Decline After Hematopoietic Cell Transplantation
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