Analysis of Case-Parent Trios Using a Loglinear Model with Adjustment for Transmission Ratio Distortion
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Analysis of Case-Parent Trios Using a Loglinear Model with Adjustment for Transmission Ratio Distortion. / Huang, Lam Opal; Infante-RIvard, Claire; Labbe, Aurélie.
In: Frontiers in Genetics, Vol. 7, 155, 08.2016, p. 1-10.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - Analysis of Case-Parent Trios Using a Loglinear Model with Adjustment for Transmission Ratio Distortion
AU - Huang, Lam Opal
AU - Infante-RIvard, Claire
AU - Labbe, Aurélie
N1 - The Supplementary Material for this article can be found online at: https://www.frontiersin.org/article/10.3389/fgene.2016.00155
PY - 2016/8
Y1 - 2016/8
N2 - Transmission of the two parental alleles to offspring deviating from the Mendelian ratio is termed Transmission Ratio Distortion (TRD), occurs throughout gametic and embryonic development. TRD has been well-studied in animals, but remains largely unknown in humans. The Transmission Disequilibrium Test (TDT) was first proposed to test for association and linkage in case-trios (affected offspring and parents); adjusting for TRD using control-trios was recommended. However, the TDT does not provide risk parameter estimates for different genetic models. A loglinear model was later proposed to provide child and maternal relative risk (RR) estimates of disease, assuming Mendelian transmission. Results from our simulation study showed that case-trios RR estimates using this model are biased in the presence of TRD; power and Type 1 error are compromised. We propose an extended loglinear model adjusting for TRD. Under this extended model, RR estimates, power and Type 1 error are correctly restored. We applied this model to an intrauterine growth restriction dataset, and showed consistent results with a previous approach that adjusted for TRD using control-trios. Our findings suggested the need to adjust for TRD in avoiding spurious results. Documenting TRD in the population is therefore essential for the correct interpretation of genetic association studies.
AB - Transmission of the two parental alleles to offspring deviating from the Mendelian ratio is termed Transmission Ratio Distortion (TRD), occurs throughout gametic and embryonic development. TRD has been well-studied in animals, but remains largely unknown in humans. The Transmission Disequilibrium Test (TDT) was first proposed to test for association and linkage in case-trios (affected offspring and parents); adjusting for TRD using control-trios was recommended. However, the TDT does not provide risk parameter estimates for different genetic models. A loglinear model was later proposed to provide child and maternal relative risk (RR) estimates of disease, assuming Mendelian transmission. Results from our simulation study showed that case-trios RR estimates using this model are biased in the presence of TRD; power and Type 1 error are compromised. We propose an extended loglinear model adjusting for TRD. Under this extended model, RR estimates, power and Type 1 error are correctly restored. We applied this model to an intrauterine growth restriction dataset, and showed consistent results with a previous approach that adjusted for TRD using control-trios. Our findings suggested the need to adjust for TRD in avoiding spurious results. Documenting TRD in the population is therefore essential for the correct interpretation of genetic association studies.
KW - Faculty of Health and Medical Sciences
U2 - 10.3389/fgene.2016.00155
DO - 10.3389/fgene.2016.00155
M3 - Journal article
VL - 7
SP - 1
EP - 10
JO - Frontiers in Genetics
JF - Frontiers in Genetics
SN - 1664-8021
M1 - 155
ER -
ID: 189420235