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Information
| Unique identifier | OMICS_24673 |
|---|---|
| Name | GMDR |
| Alternative name | Generalized Multifactor Dimensionality Reduction |
| Software type | Application/Script |
| Interface | Command line interface, Graphical user interface |
| Restrictions to use | None |
| Operating system | Unix/Linux, Mac OS, Windows |
| Programming languages | Java, Perl |
| License | GNU General Public License version 2.0 |
| Computer skills | Advanced |
| Version | 0.9 |
| Stability | Beta |
| Requirements |
Java SE Runtime Environment
|
| Maintained | Yes |
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Documentation
- Documentation: http://www.ssg.uab.edu/gmdr/files/GMDR%20User%20Manual.pdf
Maintainers
- person_outline Xiang-Yang Lou
- person_outline Guo-Bo Chen
Publications for Generalized Multifactor Dimensionality Reduction
GMDR: Versatile Software for Detecting Gene-Gene and Gene-Environ- ment Interactions Underlying Complex Traits
Practical and Theoretical Considerations in Study Design for Detecting Gene-Gene Interactions Using MDR and GMDR Approaches
GMDR citations
(94)Fuzzy set based generalized multifactor dimensionality reduction analysis of gene gene interactions
[…] In this study, we proposed a FGMDR, a fuzzy extension of GMDR to detect GGIs. FGMDR can handle both binary and quantitative traits, and allows adjustment for covariates. Thus, FGMDR is a method to overcome shortcomings due to the […]
Association and cis mQTL analysis of variants in CHRNA3 A5, CHRNA7, CHRNB2, and CHRNB4 in relation to nicotine dependence in a Chinese Han population
[…] ogical roles in both the peripheral and the central nervous systems. To determine whether there exists any epistatic effect among these nAChR subunits, we performed interaction analysis using our own GMDR-GPU program, which revealed two significant interaction models for FTND. The first model consists of SNPs rs16969968 in CHRNA5 and rs7178270 in CHRNB4, with a CVC 7 of 10, prediction accuracy of […]
Interactions among variants in TXA2R, P2Y12 and GPIIIa are associated with carotid plaque vulnerability in Chinese population
[…] testamong patients with VP, SP and non-plaque. Difference of genotype frequencies among patients with VP, SP and non-plaque was also compared by χ2-test. Gene-gene interaction was assessed using the GMDR method, as described in our previous studies [, ]. The GMDR v 0.7 program was used in this study (www.healthsystem. virginia.edu/internet/addiction-genomics/Software) []. This model was then conf […]
Childhood trauma interacted with BDNF Val66Met influence schizophrenic symptoms
[…] ed that BDNF played a pivotal role effecting by methylation, and glucocorticoid receptor.[]Our case-only study found models of BDNF Val66Met interacted with some ChT types on the excitement factor by GMDR. The case-only test has been proposed as a more powerful approach to detect G × E interactions. In this study, the excitement factors include items of excitement, hostility, noncooperation, and i […]
GxGrare: gene gene interaction analysis method for rare variants from high throughput sequencing data
[…] In the methods section, we introduce a novel collapsing idea. Then, we briefly review the GMDR method and evaluation measures. Last, we explain our proposed analysis steps. […]
UCP2 and UCP3 variants and gene environment interaction associated with prediabetes and T2DM in a rural population: a case control study in China
[…] included additive, recessive and dominant models. Frequencies of haplotypes were calculated and compared among the three groups. Finally, we employed the general multifactor dimensionality reduction (GMDR) method [] and logistic regression to estimate the interaction between gene and environmental risk factors.Multinomial logistic regression, χ2 test and one-way analyses of variance were performed […]
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