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Protocols

MDR-PDT specifications

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Unique identifier OMICS_11222
Name MDR-PDT
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS
Computer skills Advanced
Version 2.0.1.21
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Edin Martin

Publication for MDR-PDT

MDR-PDT citations

 (10)
library_books

A roadmap to multifactor dimensionality reduction methods

2015
Brief Bioinform
PMCID: 4793893
PMID: 26108231
DOI: 10.1093/bib/bbv038

[…] a limited extent by selecting a single matched pair from each family. To profit from extended informative pedigrees, MDR was merged with the genotype pedigree disequilibrium test (PDT) [] to form the MDR-PDT []. The genotype-PDT statistic is calculated for each multifactor cell and compared with a threshold, e.g. 0, for all possible d-factor combinations. If the test statistic is greater than this […]

call_split

Catecholaminergic Gene Variants: Contribution in ADHD and Associated Comorbid Attributes in the Eastern Indian Probands

2013
Biomed Res Int
PMCID: 3791561
PMID: 24163823
DOI: 10.1155/2013/918410
call_split See protocol

[…] ll hypothesis of no association. For the family-based data, we have analyzed only the trio families by MDR phenomics version 1.0 []. In absence of any phenotype, the MDR-pedigree disequilibrium test (MDR-PDT) was used for analysis []; the missing genotype was coded as “3” in the input file. Statistical significance was calculated after a 1000-fold permutation test. P values for each statistic were […]

library_books

Efficient techniques for genotype‐phenotype correlational analysis

2013
BMC Med Inform Decis Mak
PMCID: 3686582
PMID: 23557276
DOI: 10.1186/1472-6947-13-41

[…] or attribute. The method to create a new attribute or variable changes the representation space of the original data. The details of the MDR algorithm can be found in [,,]. Authors in [] develop the MDR‐PDT algorithm by merging the MDR method with the genotype‐Pedigree Disequilibrium Test (geno‐PDT). Unlike ordinary MDR, it can identify single‐locus effects or joint effects of multiple loci in fa […]

library_books

Gene Gene Interaction and Functional Impact of Polymorphisms on Innate Immune Genes in Controlling Plasmodium falciparum Blood Infection Level

2012
PLoS One
PMCID: 3470565
PMID: 23071570
DOI: 10.1371/journal.pone.0046441

[…] itchie, et al. is a computational strategy to detect and characterize gene-gene interactions that may be associated with disease susceptibility . So far, MDR and its extensions such as GMDR, FAM-MDR, MDR-PDT, EMDR – have identified many interacting genetic variants underlying a wide variety of complex human diseases such as Alzheimer's disease, asthma, atrial fibrillation, autism, bladder cancer, […]

library_books

Overcoming Multidrug Resistance via Photodestruction of ABCG2 Rich Extracellular Vesicles Sequestering Photosensitive Chemotherapeutics

2012
PLoS One
PMCID: 3329466
PMID: 22530032
DOI: 10.1371/journal.pone.0035487

[…] were non-illuminated. Moreover, cytotoxicity studies revealed that MDR MCF-7/MR cells became highly sensitive to the cytotoxic effect exerted by IAs upon illumination, hence resulting in reversal of MDR.PDT acts directly on tumor cells typically via occlusion of the vasculature that nourishes the tumor . Treatment selectivity is based on the accumulation of higher photosensitizer levels within th […]

library_books

Genome Wide Association Scan of South Korean Autism Spectrum Disorders with Language Delay: A Preliminary Study

2011
PMCID: 3079188
PMID: 21519539
DOI: 10.4306/pi.2011.8.1.61

[…] We determined the Mendelian inheritance error and tested the family-based association for each individual polymorphism using the standard TDT method. In addition, we used MDR-PDT to detect epistasis on a genome-wide scale with 194 markers that had a p-value of <10-3 in the TDT test. The false-discovery rate (FDR) is a method that considers the expected proportion of si […]


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MDR-PDT institution(s)
Department of Medicine, Center for Human Genetics, Duke University Medical Center, Durham, NC, USA; Center for Human Genetic Research, Vanderbilt University Medical Center, Nashville, TN, USA; Computational Genetics Laboratory, Departments of Genetics, Biological Sciences, and Community and Family Medicine, Dartmouth Medical School, Lebanon, NH, USA; Department of Computer Science, University of New Hampshire, Durham, NH, USA

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