A log-linear approach to case-parent-triad data: assessing effects of disease genes that act either directly or through maternal effects and that may be subject to parental imprinting

American Journal of Human Genetics
C R WeinbergR T Lie

Abstract

We describe a log-linear method for analysis of case-parent-triad data, based on maximum likelihood with stratification on parental mating type. The method leads to estimates of association parameters, such as relative risks, for a single allele, and also to likelihood ratio chi2 tests (LRTs) of linkage disequilibrium. Hardy-Weinberg equilibrium need not be assumed. Our simulations suggest that the LRT has power similar to that of the chi2 "score" test proposed by Schaid and Sommer and that both can outperform the transmission/disequilibrium test (TDT), although the TDT can perform better under an additive model of inheritance. Because a restricted version of the LRT is asymptotically equivalent to the TDT, the proposed test can be regarded as a generalization of the TDT. The method that we describe generalizes easily to accommodate maternal effects on risk and, in fact, produces powerful and orthogonal tests of the contribution of fetal versus maternal genetic factors. We further generalize the model to allow for effects of parental imprinting. Imprinting effects can be fitted by a simple, iterative procedure that relies on the expectation-maximization algorithm and that uses standard statistical software for the maximization ...Continue Reading

Citations

Aug 13, 2011·American Journal of Medical Genetics. Part a·Katelyn S WeymouthJacqueline T Hecht
Sep 28, 2002·Teratology·Sonja A RasmussenUNKNOWN National Birth Defects Prevention Study
Sep 28, 2004·Human Genetics·Liselotte E JensenLaura E Mitchell
May 9, 2006·Human Genetics·Liselotte E JensenAlexander S Whitehead
Jan 9, 2009·Human Genetics·Nicola CarrollAnne Parle-McDermott
May 16, 2008·Journal of Human Genetics·Heiko ReutterElisabeth Mangold
Sep 4, 2012·Cancer Causes & Control : CCC·Philip J LupoMichael E Scheurer
Dec 5, 2003·Molecular Genetics and Metabolism·Anne Parle-McDermottUNKNOWN Birth Defects Research Group
Jun 18, 2003·Molecular Genetics and Metabolism·Valerie B O'LearyLawrence C Brody
Jan 15, 2009·European Journal of Human Genetics : EJHG·Jae Woong SullTerri H Beaty
Apr 10, 2008·European Journal of Human Genetics : EJHG·Steven Buyske
Oct 31, 2013·European Journal of Human Genetics : EJHG·Paras GargAndrew J Sharp
Mar 28, 2013·European Journal of Human Genetics : EJHG·Miao HanShili Lin
Aug 26, 2011·Journal of Human Genetics·Iman SalahshourifarBin Alwi Zilfalil
Apr 19, 2006·Nature Reviews. Genetics·Nan M Laird, Christoph Lange
Jul 5, 2002·The New England Journal of Medicine·Claire Infante-RivardJuan Carlos Feoli-Fonseca
Jul 25, 2008·American Journal of Epidemiology·M ShiC R Weinberg
Jun 2, 2009·American Journal of Epidemiology·Emily O KistnerClarice R Weinberg
Oct 27, 2009·American Journal of Epidemiology·Clarice R Weinberg, Min Shi
Feb 8, 2011·American Journal of Epidemiology·Min ShiClarice R Weinberg
Dec 19, 2012·International Journal of Epidemiology·Min ShiClarice R Weinberg
Sep 10, 2004·Genetics in Medicine : Official Journal of the American College of Medical Genetics·Yasushi SuzukiJeffrey C Murray
Apr 15, 2011·Epidemiology·Min ShiClarice R Weinberg
Jun 9, 2006·Annals of Human Genetics·S L MinassianJ S Sinsheimer
Apr 7, 2009·Annals of Human Genetics·Min ShiClarice R Weinberg
Jun 14, 2005·Journal of Medical Genetics·C A HobbsM A Cleves
May 15, 2010·Journal of Biomedicine & Biotechnology·Nicholas K Priest, Michael J Wade
Feb 16, 2005·Human Heredity·A-S JannotF Clerget-Darpoux
Oct 22, 2008·Human Heredity·Yik Y TeoTaane G Clark
Jul 23, 2009·Human Heredity·T L Bergemann, Z Huang
Apr 24, 2010·Human Heredity·Min ShiClarice R Weinberg
Dec 25, 2009·Circulation. Cardiovascular Genetics·Elizabeth GoldmuntzLaura E Mitchell

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.