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Volume 13
Issue 2
10.3390/genes13020176
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Article

Research on Frequent Itemset Mining of Imaging Genetics GWAS in Alzheimer’s Disease

by
Hong Liang
1,
Luolong Cao
1,
Yue Gao
1,
Haoran Luo
1,
Xianglian Meng
2,
Ying Wang
3,
Jin Li
1,* and
Wenjie Liu
1,2,*
1
College of Intelligent Systems Science and Engineering, Harbin Engineering University, Harbin 150001, China
2
School of Computer Information and Engineering, Changzhou Institute of Technology, Changzhou 213032, China
3
School of Computer Science and Engineering, Changshu Institute of Technology, Changshu 215500, China
*
Authors to whom correspondence should be addressed.
Genes 2022, 13(2), 176; https://doi.org/10.3390/genes13020176
Submission received: 4 December 2021 / Revised: 11 January 2022 / Accepted: 16 January 2022 / Published: 19 January 2022
(This article belongs to the Section Human Genomics and Genetic Diseases)
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Abstract

As an efficient method, genome-wide association study (GWAS) is used to identify the association between genetic variation and pathological phenotypes, and many significant genetic variations founded by GWAS are closely associated with human diseases. However, it is not enough to mine only a single marker effect variation on complex biological phenotypes. Mining highly correlated single nucleotide polymorphisms (SNP) is more meaningful for the study of Alzheimer's disease (AD). In this paper, we used two frequent pattern mining (FPM) framework, the FP-Growth and Eclat algorithms, to analyze the GWAS results of functional magnetic resonance imaging (fMRI) phenotypes. Moreover, we applied the definition of confidence to FP-Growth and Eclat to enhance the FPM framework. By calculating the conditional probability of identified SNPs, we obtained the corresponding association rules to provide support confidence between these important SNPs. The resulting SNPs showed close correlation with hippocampus, memory, and AD. The experimental results also demonstrate that our framework is effective in identifying SNPs and provide candidate SNPs for further research.
Keywords: vGWAS; FPM; Eclat; association rules; FI; Alzheimer’s disease vGWAS; FPM; Eclat; association rules; FI; Alzheimer’s disease

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MDPI and ACS Style

Liang, H.; Cao, L.; Gao, Y.; Luo, H.; Meng, X.; Wang, Y.; Li, J.; Liu, W. Research on Frequent Itemset Mining of Imaging Genetics GWAS in Alzheimer’s Disease. Genes 2022, 13, 176. https://doi.org/10.3390/genes13020176

AMA Style

Liang H, Cao L, Gao Y, Luo H, Meng X, Wang Y, Li J, Liu W. Research on Frequent Itemset Mining of Imaging Genetics GWAS in Alzheimer’s Disease. Genes. 2022; 13(2):176. https://doi.org/10.3390/genes13020176

Chicago/Turabian Style

Liang, Hong, Luolong Cao, Yue Gao, Haoran Luo, Xianglian Meng, Ying Wang, Jin Li, and Wenjie Liu. 2022. "Research on Frequent Itemset Mining of Imaging Genetics GWAS in Alzheimer’s Disease" Genes 13, no. 2: 176. https://doi.org/10.3390/genes13020176

APA Style

Liang, H., Cao, L., Gao, Y., Luo, H., Meng, X., Wang, Y., Li, J., & Liu, W. (2022). Research on Frequent Itemset Mining of Imaging Genetics GWAS in Alzheimer’s Disease. Genes, 13(2), 176. https://doi.org/10.3390/genes13020176

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