HisCoM-GGI: Software for Hierarchical Structural Component Analysis of Gene-Gene Interactions
- Author:
Sungkyoung CHOI
1
;
Sungyoung LEE
;
Taesung PARK
Author Information
- Publication Type:Note
- Keywords: gene-gene interactions; generalized structured component analysis; genome-wide association study; ridge regression
- MeSH: Case-Control Studies; Genome-Wide Association Study; Methods; Phenotype; Polymorphism, Single Nucleotide; Statistics as Topic
- From:Genomics & Informatics 2018;16(4):e38-
- CountryRepublic of Korea
- Language:English
- Abstract: Gene-gene interaction (GGI) analysis is known to play an important role in explaining missing heritability. Many previous studies have already proposed software to analyze GGI, but most methods focus on a binary phenotype in a case-control design. In this study, we developed “Hierarchical structural CoMponent analysis of Gene-Gene Interactions” (HisCoM-GGI) software for GGI analysis with a continuous phenotype. The HisCoM-GGI method considers hierarchical structural relationships between genes and single nucleotide polymorphisms (SNPs), enabling both gene-level and SNP-level interaction analysis in a single model. Furthermore, this software accepts various types of genomic data and supports data management and multithreading to improve the efficiency of genome-wide association study data analysis. We expect that HisCoM-GGI software will provide advanced accessibility to researchers in genetic interaction studies and a more effective way to understand biological mechanisms of complex diseases.
