ArticleJournal of human genetics2008
Comparison of multivariate adaptive regression splines and logistic regression in detecting SNP-SNP interactions and their application in prostate cancer.
Article in Journal of human genetics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Supervised Machine-Learning Reveals That Old and Obese People Achieve Low Dapsone Concentrations.CPT: pharmacometrics & systems pharmacology · 2017Trial
- Impact of nonlinear interactions of pharmacokinetics and MICs on sputum bacillary kill rates as a marker of sterilizing effect in tuberculosis.Antimicrobial agents and chemotherapy · 2015Trial
- Genomic prediction through machine learning and neural networks for traits with epistasis.Computational and structural biotechnology journal · 2022Article
- Machine Learning to Identify Interaction of Single-Nucleotide Polymorphisms as a Risk Factor for Chronic Drug-Induced Liver Injury.International journal of environmental research and public health · 2021Article
- Genetic interactions effects for cancer disease identification using computational models: a review.Medical & biological engineering & computing · 2021Review
- Robust genetic interaction analysis.Briefings in bioinformatics · 2019Review
- SNP interaction pattern identifier (SIPI): an intensive search for SNP-SNP interaction patterns.Bioinformatics (Oxford, England) · 2017Article
- SNP by SNP by environment interaction network of alcoholism.BMC systems biology · 2017Article
- The Non-Linear Child: Ontogeny, Isoniazid Concentration, and NAT2 Genotype Modulate Enzyme Reaction Kinetics and Metabolism.EBioMedicine · 2016Article
- Genome wide analysis of flowering time trait in multiple environments via high-throughput genotyping technique in Brassica napus L.PloS one · 2015Article
- The post GWAS era: strategies to identify gene-gene and gene-environment interactions in urinary bladder cancer.EXCLI journal · 2014Article
- SNP-SNP interaction network in angiogenesis genes associated with prostate cancer aggressiveness.PloS one · 2013Article
- Power of a reproducing kernel-based method for testing the joint effect of a set of single-nucleotide polymorphisms.Genetica · 2012Article
- TRM: a powerful two-stage machine learning approach for identifying SNP-SNP interactions.Annals of human genetics · 2012Article
- Protein expressions and genetic variations of SLC5A8 in prostate cancer risk and aggressiveness.Urology · 2011Article
- Mixture modelling as an exploratory framework for genotype-trait associations.Journal of the Royal Statistical Society. Series C, Applied statistics · 2011Article
- Adaptive regression modeling of biomarkers of potential harm in a population of U.S. adult cigarette smokers and nonsmokers.BMC medical research methodology · 2010Article
- Cytokine genetic polymorphisms and prostate cancer aggressiveness.Carcinogenesis · 2009Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Single nucleotide polymorphism (SNP) interaction plays a critical role for complex diseases. The primary limitation of logistic regressions (LR) in testing SNP-SNP interactions is that coefficient estimates may not be valid because of numerous terms in a model. Multivariate adaptive regression splines (MARS) have useful features to effectively reduce the number of terms in a model. To study how MARS can address these drawbacks possibly better than LR, the power of MARS and LR with SNPs using the reference-coding and additive-mode scheme was compared using simulated data of ten SNPs for 400 subjects based on 1,000 replications for five interaction models. In overall scenarios, MARS performed better than LR. In the model with a dominant two-way interaction, the power range was 76-96% for MARS and 1-8% for LR in both coding schemes. In the dominant three-way interaction model, the power was 57-85% for MARS and less than 4% for LR. In the prostate cancer example, we evaluated the association between ten SNPs and prostate cancer risk in 649 Caucasians. The best model with one two-way and one three-way interaction was selected using MARS. The findings supported that MARS may provide a useful tool for exploring SNP-SNP interactions.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.