Tag: Disequilibrium Test

ET-TDT – Evolutionary Tree-Transmission Disequilibrium Test

ET-TDT

:: DESCRIPTION

ET-TDT is a procedure to combine the benefits of measured haplotype analysis with TDT to find which haplotypes or groups of haplotypes, as defined in an evolutionary tree, are responsible for increased (or decreased) relative risk for a genetic condition.

::DEVELOPER

The Devlin lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows

:: DOWNLOAD

 ET-TDT

:: MORE INFORMATION

Citation:

Howard Seltman, Kathryn Roeder, and B. Devlin,
Transmission/Disequilibrium Test Meets Measured Haplotype Analysis: Family-Based Association Analysis Guided by Evolution of Haplotypes
Am. J. Hum. Genet., 68:1250-1263, 2001

MdrPDT 2.0.1.21 – Multifactor Dimensionality Reduction and genotype Pedigree Disequilibrium Test

MdrPDT 2.0.1.21

:: DESCRIPTION

MDR-PDT  merges the MDR method with the genotype-Pedigree Disequilibrium Test (geno-PDT). MDR-PDT allows identification of single-locus effects or joint effects of multiple loci in families of diverse structure. We present simulations to demonstrate the validity of the test and evaluate its power. To examine its applicability to real data, we applied the MDR-PDT to data from candidate genes for Alzheimer disease (AD) in a large family dataset. These results show the utility of the MDR-PDT for understanding the genetics of complex diseases.

::DEVELOPER

Ritchie Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux / MacOsX
  • Java

:: DOWNLOAD

 MDR-PDT

:: MORE INFORMATION

Citation:

Martin, Ritchie, Hahn, Kang, Moore (2006),
“A novel method to identify gene-gene effects in nuclear families: the MDR-PDT“,
Genetic Epidemiology, 30:111-123.

EPDT 1.0 – Extended Pedigree Disequilibrium Test

EPDT 1.0

:: DESCRIPTION

EPDT (Extended Pedigree Disequilibrium Test) is a major advancement in detecting linkage/disequilibrium signals  between genetic markers and disease loci, particularly if only one or a few large pedigrees are available. The strategy differs from conventional approaches that require at least a moderate number of families to attain adequate statistical power. The proposed testing procedure is advantageous in that it provides high statistical power coupled with reduced sample collection. Furthermore, the proposed method avoids problems such as potential population stratification and genetic heterogeneity, and is robust with respect to misspecification of phenotype.

::DEVELOPER

Chun-Liang Chen, Cathy SJ Fann(Institute of Biomedical Sciences, Academia Sinica, Taiwan)

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 EPDT

:: MORE INFORMATION

Citation

H.C. Yang, C.L. Chen, and C.S.J. Fann (2004).
A pedigree-based disequilibrium test for a single extended pedigree