AIMC Topic: Epistasis, Genetic
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Multiobjective differential evolution-based multifactor dimensionality reduction for detecting gene-gene interactions.
Scientific reports
Oct 9, 2017
Epistasis within disease-related genes (gene-gene interactions) was determined through contingency table measures based on multifactor dimensionality reduction (MDR) using single-nucleotide polymorphisms (SNPs). Most MDR-based methods use the single ...
An empirical fuzzy multifactor dimensionality reduction method for detecting gene-gene interactions.
BMC genomics
Mar 14, 2017
BACKGROUND: Detection of gene-gene interaction (GGI) is a key challenge towards solving the problem of missing heritability in genetics. The multifactor dimensionality reduction (MDR) method has been widely studied for detecting GGIs. MDR reduces the...
A Review on Methods for Detecting SNP Interactions in High-Dimensional Genomic Data.
IEEE/ACM transactions on computational biology and bioinformatics
Dec 2, 2016
In this era of genome-wide association studies (GWAS), the quest for understanding the genetic architecture of complex diseases is rapidly increasing more than ever before. The development of high throughput genotyping and next generation sequencing ...
A novel fuzzy set based multifactor dimensionality reduction method for detecting gene-gene interaction.
Computational biology and chemistry
Sep 29, 2016
BACKGROUND: Gene-gene interaction (GGI) is one of the most popular approaches for finding the missing heritability of common complex traits in genetic association studies. The multifactor dimensionality reduction (MDR) method has been widely studied ...
Using the Generalized Index of Dissimilarity to Detect Gene-Gene Interactions in Multi-Class Phenotypes.
PloS one
Aug 24, 2016
To find genetic association between complex diseases and phenotypic traits, one important procedure is conducting a joint analysis. Multifactor dimensionality reduction (MDR) is an efficient method of examining the interactions between genes in genet...
Breast cancer-associated high-order SNP-SNP interaction of CXCL12/CXCR4-related genes by an improved multifactor dimensionality reduction (MDR-ER).
Oncology reports
Jul 21, 2016
In association studies, the combined effects of single nucleotide polymorphism (SNP)-SNP interactions and the problem of imbalanced data between cases and controls are frequently ignored. In the present study, we used an improved multifactor dimensio...
Gene-Disease Interaction Retrieval from Multiple Sources: A Network Based Method.
BioMed research international
Jul 13, 2016
The number of gene-related databases has been growing largely along with the research on genes of bioinformatics. Those databases are filled with various gene functions, pathways, interactions, and so forth, while much biomedical knowledge about huma...
A knowledge-based approach for predicting gene-disease associations.
Bioinformatics (Oxford, England)
Jun 9, 2016
MOTIVATION: Recent advances of next-generation sequence technologies have made it possible to rapidly and inexpensively identify gene variations. Knowing the disease association of these gene variations is important for early intervention to treat de...
OmniSearch: a semantic search system based on the Ontology for MIcroRNA Target (OMIT) for microRNA-target gene interaction data.
Journal of biomedical semantics
May 10, 2016
As a special class of non-coding RNAs (ncRNAs), microRNAs (miRNAs) perform important roles in numerous biological and pathological processes. The realization of miRNA functions depends largely on how miRNAs regulate specific target genes. It is there...
Sparse Inverse Covariance Estimation with L0 Penalty for Network Construction with Omics Data.
Journal of computational biology : a journal of computational molecular cell biology
Feb 1, 2016
Constructing coexpression and association networks with omics data is crucial for studying gene-gene interactions and underlying biological mechanisms. In recent years, learning the structure of a Gaussian graphical model from high-dimensional data u...
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