Skip to main content

Search for Risk Haplotype Segments with GWAS Data by Use of Finite Mixture Models

Ali, Fadhaa, Zhang, Jian (2015) Search for Risk Haplotype Segments with GWAS Data by Use of Finite Mixture Models. Statistics and its interface, 9 (3). pp. 267-280. ISSN 1938-7989. E-ISSN 1938-7997. (doi:10.4310/SII.2016.v9.n3.a2)

Abstract

The region-based association analysis has been proposed to capture the

involves a list of unphased multiple-locus genotypes with

To tackle the problem of the sparse distribution, a two-stage approach was proposed in literature: In the first stage, haplotypes are computationally inferred from genotypes, followed by a haplotype co-classification. In the second stage, the association analysis is performed on the inferred haplotype groups. If a haplotype is unevenly distributed between the case and control samples, this

false haplotypes which hamper the detection of rare but true

risk genotypes based on a finite mixture model. In Stage 2, we infer risk haplotypes from risk genotypes inferred from the

To estimate the finite mixture model, we propose an EM algorithm with a novel data partition-based initialization.

simulation studies and a real data analysis. Compared to the existing

multiple Z-test procedure, we find that the power of genome-wide association studies can be increased by using the proposed procedure.

Item Type: Article
DOI/Identification number: 10.4310/SII.2016.v9.n3.a2
Subjects: Q Science > QA Mathematics (inc Computing science) > QA276 Mathematical statistics
Divisions: Faculties > Sciences > School of Mathematics Statistics and Actuarial Science > Statistics
Depositing User: Jian Zhang
Date Deposited: 16 Jun 2015 13:47 UTC
Last Modified: 13 Feb 2020 04:07 UTC
Resource URI: https://kar.kent.ac.uk/id/eprint/49031 (The current URI for this page, for reference purposes)
Zhang, Jian: https://orcid.org/0000-0001-8405-2323
  • Depositors only (login required):

Downloads

Downloads per month over past year