GMDR specifications

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

Xiang-Yang Lou <>
Guo-Bo Chen <>

Publications for Generalized Multifactor Dimensionality Reduction

GMDR: Versatile Software for Detecting Gene-Gene and Gene-Environ- ment Interactions Underlying Complex Traits.

2016 Curr Genomics

PMID: 28479868

DOI: 10.2174/1389202917666160513102612

Practical and theoretical considerations in study design for detecting gene-gene interactions using MDR and GMDR approaches.

2011 PLoS One

PMID: 21386969

DOI: 10.1371/journal.pone.0016981

A generalized combinatorial approach for detecting gene-by-gene and gene-by-environment interactions with application to nicotine dependence.

2007 Am J Hum Genet

PMID: 17503330

DOI: 10.1086/518312

GMDR citations

(2)

Detection of susceptibility loci on APOA5 and COLEC12 associated with metabolic syndrome using a genome-wide association study in a Taiwanese population

2017

PMCID: 5706800

[…] prediction accuracy as a benchmark based on 1,000 shuffles. in order to correct for multiple testing, we applied a conservative bonferroni correction factor for the number of tests employed in the gmdr analysis., based on the effect sizes in this study, the power to detect significant associations was evaluated by quanto software (http://biostats.usc.edu/quanto.html). the manhattan and q-q […]

Multivariate Dimensionality Reduction Approaches to Identify Gene-Gene and Gene-Environment Interactions Underlying Multiple Complex Traits

2014

PMCID: 4178067

[…] bivariate analysis had higher test accuracy and cross validation consistency under the correct analytical model, for example, the means of test accuracy and cross validation consistency with gee-gmdr are 0.665 and 10.000 for digenic model, 0.630 and 9.940 for trigenic model, 0.587 and 8.580 for tetragenic model, respectively, whereas those with gmdr for trait 1 (trait 2) are 0.617 (0.618) […]

GMDR institution(s)

Institute of Bioinformatics and Institute of Crop Science, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China; Research Center for Air Pollution and Health, Zhejiang University, Hangzhou, China; Institute of Computer Application Technology, College of Computer Science and Technology, Zhejiang University of Technology, Hangzhou, China; Queensland Brain Institute, University of Queensland, St Lucia, QLD, Australia; Sir Run Run Shaw Hospital and Institute of Translational Medicine, School of Medicine, Zhejiang University, Hangzhou, China; Department of Biostatistics and Bioinformatics, Tulane University, New Orleans, LA, USA

GMDR funding source(s)

Supported in part by National Institute of Health Grant R01 DA025095 and National Science Foundation DMS1462990, the National Basic Research Programs of China (973 Programs) 2011CB109306, and the National Natural Science Foundation 31271608 and 31470083.

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