Reconstructability Analysis as a Tool for Identifying Gene-Gene Interactions in Studies of Human Diseases: IEEE version

Authors

Martin Zwick, Portland State UniversityFollow
Stephen Shervais, Eastern Washington UniversityFollow
Patricia Kramer, Oregon Health and Science UniversityFollow

Published In

2005 IEEE International Conference on Systems, Man, and Cybernetics 2005

Document Type

Post-Print

Publication Date

10-10-2005

Subjects

Information theory, Epistasis (Genetics)

Abstract

There are a number of human diseases that are caused by the epistatic interaction of multiple genes. Detecting these interactions with standard statistical tools is difficult, because there may be an interaction effect, but minimal or no main effect. Reconstructability analysis uses Shannon’s information theory to detect relationships between variables in categorical datasets. We apply reconstructability analysis to data generated by five different models of gene-gene interaction, with heritability levels from 0.053 to 0.008, using 200 controls and 200 cases. We find that even with heritability levels as low as 0.008, and with the inclusion of 50 non-associated genes in the dataset, we can identify the interacting gene pairs with an accuracy of 80% or better.

Keywords: Epistasis, reconstructability analysis, information theory, gene-gene interaction, gene interaction modeling, Occam, genetics

Rights

This is the accepted manuscript version © 2004 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.

Description

This is an early report of a research project which presents only partial preliminary results. The full research report which includes additional research (with additional coauthors) was later published in Statistical Applications in Genetics and Molecular Biology; see http://archives.pdx.edu/ds/psu/11061

DOI

10.1109/ICSMC.2005.1571459

Persistent Identifier

https://archives.pdx.edu/ds/psu/42808

Citation Details

S. Shervais, M. Zwick and P. Kramer, "Reconstructability analysis as a tool for identifying gene-gene interactions in studies of human diseases," 2005 IEEE International Conference on Systems, Man and Cybernetics, Waikoloa, HI, USA, 2005, pp. 2102-2106 Vol. 3, doi: 10.1109/ICSMC.2005.1571459.