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Combining disease models to test for gene-environment interaction in nuclear families

Thomas J Hoffmann, Stijn Vansteelandt UGent, Christoph Lange, Edwin K Silverman, Dawn L DeMeo and Nan M Laird (2011) BIOMETRICS. 67(4). p.1260-1270
abstract
It is useful to have robust geneenvironment interaction tests that can utilize a variety of family structures in an efficient way. This article focuses on tests for geneenvironment interaction in the presence of main genetic and environmental effects. The objective is to develop powerful tests that can combine trio data with parental genotypes and discordant sibships when parents' genotypes are missing. We first make a modest improvement on a method for discordant sibs (discordant on phenotype), but the approach does not allow one to use families when all offspring are affected, e.g., trios. We then make a modest improvement on a Mendelian transmission-based approach that is inefficient when discordant sibs are available, but can be applied to any nuclear family. Finally, we propose a hybrid approach that utilizes the most efficient method for a specific family type, then combines over families. We utilize this hybrid approach to analyze a chronic obstructive pulmonary disorder dataset to test for geneenvironment interaction in the Serpine2 gene with smoking. The methods are freely available in the R package fbati.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
Gene-environment interaction, Serpine2, OBSTRUCTIVE PULMONARY-DISEASE, CASE-PARENT TRIADS, ASYMPTOTIC BIAS, CANDIDATE GENES, ASSOCIATION, GENOTYPE, EXPOSURE, DESIGNS, INDEPENDENCE, EPIDEMIOLOGY, Candidate gene analysis, Binary trait, Family-based association tests, COPD
journal title
BIOMETRICS
Biometrics
volume
67
issue
4
pages
1260 - 1270
Web of Science type
Article
Web of Science id
000298095900009
JCR category
STATISTICS & PROBABILITY
JCR impact factor
1.827 (2011)
JCR rank
16/116 (2011)
JCR quartile
1 (2011)
ISSN
0006-341X
DOI
10.1111/j.1541-0420.2011.01581.x
project
Bioinformatics: from nucleotids to networks (N2N)
language
English
UGent publication?
yes
classification
A1
copyright statement
I have transferred the copyright for this publication to the publisher
id
2122745
handle
http://hdl.handle.net/1854/LU-2122745
date created
2012-05-30 16:58:17
date last changed
2016-12-19 15:42:55
@article{2122745,
  abstract     = {It is useful to have robust geneenvironment interaction tests that can utilize a variety of family structures in an efficient way. This article focuses on tests for geneenvironment interaction in the presence of main genetic and environmental effects. The objective is to develop powerful tests that can combine trio data with parental genotypes and discordant sibships when parents' genotypes are missing. We first make a modest improvement on a method for discordant sibs (discordant on phenotype), but the approach does not allow one to use families when all offspring are affected, e.g., trios. We then make a modest improvement on a Mendelian transmission-based approach that is inefficient when discordant sibs are available, but can be applied to any nuclear family. Finally, we propose a hybrid approach that utilizes the most efficient method for a specific family type, then combines over families. We utilize this hybrid approach to analyze a chronic obstructive pulmonary disorder dataset to test for geneenvironment interaction in the Serpine2 gene with smoking. The methods are freely available in the R package fbati.},
  author       = {Hoffmann, Thomas J and Vansteelandt, Stijn and Lange, Christoph and Silverman, Edwin K and DeMeo, Dawn L and Laird, Nan M},
  issn         = {0006-341X},
  journal      = {BIOMETRICS},
  keyword      = {Gene-environment interaction,Serpine2,OBSTRUCTIVE PULMONARY-DISEASE,CASE-PARENT TRIADS,ASYMPTOTIC BIAS,CANDIDATE GENES,ASSOCIATION,GENOTYPE,EXPOSURE,DESIGNS,INDEPENDENCE,EPIDEMIOLOGY,Candidate gene analysis,Binary trait,Family-based association tests,COPD},
  language     = {eng},
  number       = {4},
  pages        = {1260--1270},
  title        = {Combining disease models to test for gene-environment interaction in nuclear families},
  url          = {http://dx.doi.org/10.1111/j.1541-0420.2011.01581.x},
  volume       = {67},
  year         = {2011},
}

Chicago
Hoffmann, Thomas J, Stijn Vansteelandt, Christoph Lange, Edwin K Silverman, Dawn L DeMeo, and Nan M Laird. 2011. “Combining Disease Models to Test for Gene-environment Interaction in Nuclear Families.” Biometrics 67 (4): 1260–1270.
APA
Hoffmann, T. J., Vansteelandt, S., Lange, C., Silverman, E. K., DeMeo, D. L., & Laird, N. M. (2011). Combining disease models to test for gene-environment interaction in nuclear families. BIOMETRICS, 67(4), 1260–1270.
Vancouver
1.
Hoffmann TJ, Vansteelandt S, Lange C, Silverman EK, DeMeo DL, Laird NM. Combining disease models to test for gene-environment interaction in nuclear families. BIOMETRICS. 2011;67(4):1260–70.
MLA
Hoffmann, Thomas J, Stijn Vansteelandt, Christoph Lange, et al. “Combining Disease Models to Test for Gene-environment Interaction in Nuclear Families.” BIOMETRICS 67.4 (2011): 1260–1270. Print.