ArticleGenetics2008
AMBIENCE: a novel approach and efficient algorithm for identifying informative genetic and environmental associations with complex phenotypes.
Article in Genetics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers, 1 of them a synthesis that pooled it.
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Who cites it
19 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Transferring entropy to the realm of GxG interactions.Briefings in bioinformatics · 2018Pooled it
- Information Theoretic Methods for Variable Selection-A Review.Entropy (Basel, Switzerland) · 2022Article
- Optimized permutation testing for information theoretic measures of multi-gene interactions.BMC bioinformatics · 2021Article
- Information Theory in Computational Biology: Where We Stand Today.Entropy (Basel, Switzerland) · 2020Article
- CINOEDV: a co-information based method for detecting and visualizing n-order epistatic interactions.BMC bioinformatics · 2016Article
- An Improved Opposition-Based Learning Particle Swarm Optimization for the Detection of SNP-SNP Interactions.BioMed research international · 2015Article
- Practical aspects of genome-wide association interaction analysis.Human genetics · 2014Review
- Article
- SYMPHONY, an information-theoretic method for gene-gene and gene-environment interaction analysis of disease syndromes.Heredity · 2013Article
- Challenges and opportunities in genome-wide environmental interaction (GWEI) studies.Human genetics · 2012Review
- Modeling of environmental and genetic interactions with AMBROSIA, an information-theoretic model synthesis method.Heredity · 2011Article
- Ranking causal variants and associated regions in genome-wide association studies by the support vector machine and random forest.Nucleic acids research · 2011Article
- Information metrics in genetic epidemiology.Statistical applications in genetics and molecular biology · 2011Article
- Comparison of information-theoretic to statistical methods for gene-gene interactions in the presence of genetic heterogeneity.BMC genomics · 2010Article
- Simulating gene-environment interactions in complex human diseases.Genome medicine · 2010Article
- A two-stage search strategy for detecting multiple loci associated with rheumatoid arthritis.BMC proceedings · 2009Article
- Information-theoretic gene-gene and gene-environment interaction analysis of quantitative traits.BMC genomics · 2009Article
- The interaction index, a novel information-theoretic metric for prioritizing interacting genetic variations and environmental factors.European journal of human genetics : EJHG · 2009Article
- An information-gain approach to detecting three-way epistatic interactions in genetic association studies.Journal of the American Medical Informatics Association : JAMIAArticle
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Authors and funding
7 authors.
Funding
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Abstract
We developed a computationally efficient algorithm AMBIENCE, for identifying the informative variables involved in gene-gene (GGI) and gene-environment interactions (GEI) that are associated with disease phenotypes. The AMBIENCE algorithm uses a novel information theoretic metric called phenotype-associated information (PAI) to search for combinations of genetic variants and environmental variables associated with the disease phenotype. The PAI-based AMBIENCE algorithm effectively and efficiently detected GEI in simulated data sets of varying size and complexity, including the 10K simulated rheumatoid arthritis data set from Genetic Analysis Workshop 15. The method was also successfully used to detect GGI in a Crohn's disease data set. The performance of the AMBIENCE algorithm was compared to the multifactor dimensionality reduction (MDR), generalized MDR (GMDR), and pedigree disequilibrium test (PDT) methods. Furthermore, we assessed the computational speed of AMBIENCE for detecting GGI and GEI for data sets varying in size from 100 to 10(5) variables. Our results demonstrate that the AMBIENCE information theoretic algorithm is useful for analyzing a diverse range of epidemiologic data sets containing evidence for GGI and GEI.
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