Please use this identifier to cite or link to this item: https://hdl.handle.net/1959.11/55423
Title: A deterministic algorithm for optimality of threshold in a GWAS experiment
Contributor(s): Loh, Z (author); van der Werf, J H J  (author)orcid ; Clark, S  (author)orcid 
Publication Date: 2021
Open Access: Yes
Handle Link: https://hdl.handle.net/1959.11/55423
Open Access Link: http://www.aaabg.org/aaabghome/proceedings24.phpOpen Access Link
Abstract: While genome-wide association study (GWAS) is an important tool for gene discovery for economic traits in livestock, its use of large numbers of genetic markers necessitates the use of multiple testing correction methods. Several of these methods have been suggested, but their optimality is not as well studied. The aim of this study is to present a deterministic algorithm to provide a framework for estimating the power and false positive rate (FPR) in a GWAS, and using these estimates to test the optimality of these correction method based on the Receiver Operating Characteristic (ROC) curve. This study suggests that both Bonferroni correction and Benjamini-Hochberg False Discovery Rate are overly conservative even if under the assumption of independence between markers.
Publication Type: Conference Publication
Conference Details: AAABG 2021: 24th Conference of the Association for the Advancement of Animal Breeding and Genetics, Online Event, 2nd - 4th November, 2021
Source of Publication: Proceedings of the Association for the Advancement of Animal Breeding and Genetics, v.24, p. 208-211
Publisher: Association for the Advancement of Animal Breeding and Genetics (AAABG)
Place of Publication: Armidale, Australia
ISSN: 1328-3227
Fields of Research (FoR) 2020: 300305 Animal reproduction and breeding
300302 Animal management
310509 Genomics
Socio-Economic Objective (SEO) 2020: 100499 Livestock raising not elsewhere classified
100699 Primary products from animals not elsewhere classified
100499 Livestock raising not elsewhere classified
Peer Reviewed: Yes
HERDC Category Description: E1 Refereed Scholarly Conference Publication
Appears in Collections:Conference Publication
School of Environmental and Rural Science

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