Hierarchical Bayesian Model for Rare Variant Association Analysis Integrating Genotype Uncertainty in Human Sequence Data

2014 ◽  
Vol 39 (2) ◽  
pp. 89-100 ◽  
Author(s):  
Liang He ◽  
Janne Pitkäniemi ◽  
Antti-Pekka Sarin ◽  
Veikko Salomaa ◽  
Mikko J. Sillanpää ◽  
...  
Keyword(s):  
Association Analysis ◽  
Rare Variant ◽  
Bayesian Model ◽  
Sequence Data ◽  
Hierarchical Bayesian ◽  
Hierarchical Bayesian Model ◽  
Rare Variant Association ◽  
Human Sequence

scholarly journals RVTESTS: an efficient and comprehensive tool for rare variant association analysis using sequence data: Table 1.

2016 ◽  
Vol 32 (9) ◽  
pp. 1423-1426 ◽  
Author(s):  
Xiaowei Zhan ◽  
Youna Hu ◽  
Bingshan Li ◽  
Goncalo R. Abecasis ◽  
Dajiang J. Liu
Keyword(s):  
Association Analysis ◽  
Rare Variant ◽  
Sequence Data ◽  
Rare Variant Association ◽  
Data Table

Robust resource demand estimation using hierarchical Bayesian model in a distributed service system

2020 ◽  
Author(s):  
Sumanta Mukherjee ◽  
Krishnasuri Narayanam ◽  
Nupur Aggarwal ◽  
Digbalay Bose ◽  
Amith Singhee
Keyword(s):  
Bayesian Model ◽  
Service System ◽  
Demand Estimation ◽  
Hierarchical Bayesian ◽  
Hierarchical Bayesian Model ◽  
Resource Demand ◽  
Distributed Service

A Powerful Adaptive Cauchy-Variable Combination Method for Rare-Variant Association Analysis

2021 ◽  
Vol 57 (2) ◽  
pp. 238-245
Author(s):  
Y. Tang ◽  
Y. Zhou ◽  
L. Chen ◽  
Y. Bao ◽  
R. Zhang
Keyword(s):  
Association Analysis ◽  
Rare Variant ◽  
Combination Method ◽  
Rare Variant Association ◽  
Variable Combination

Rare, Damaging DNA Variants in CORIN and Risk of Coronary Artery Disease: Insights From Functional Genomics and Large-Scale Sequencing Analyses

2021 ◽  
Author(s):  
Minxian Wang ◽  
Vivian S. Lee-Kim ◽  
Deepak S. Atri ◽  
Nadine H. Elowe ◽  
John Yu ◽  
...  
Keyword(s):  
Coronary Artery Disease ◽  
Coronary Artery ◽  
Association Analysis ◽  
Rare Variant ◽  
Odds Ratio ◽  
Large Scale ◽  
Missense Mutations ◽  
Rare Variant Association ◽  
Missense Variants ◽  
Artery Disease

Background: Corin is a protease expressed in cardiomyocytes that plays a key role in salt handling and intravascular volume homeostasis via activation of natriuretic peptides. It is unknown if Corin loss-of-function (LOF) is causally associated with risk of coronary artery disease (CAD). Methods: We analyzed all coding CORIN variants in an Italian case-control study of CAD. We functionally tested all 64 rare missense mutations in Western Blot and Mass Spectroscopy assays for proatrial natriuretic peptide cleavage. An expanded rare variant association analysis for Corin LOF mutations was conducted in whole exome sequencing data from 37 799 CAD cases and 212 184 controls. Results: We observed LOF variants in CORIN in 8 of 1803 (0.4%) CAD cases versus 0 of 1725 controls ( P , 0.007). Of 64 rare missense variants profiled, 21 (33%) demonstrated <30% of wild-type activity and were deemed damaging in the 2 functional assays for Corin activity. In a rare variant association study that aggregated rare LOF and functionally validated damaging missense variants from the Italian study, we observed no association with CAD—21 of 1803 CAD cases versus 12 of 1725 controls with adjusted odds ratio of 1.61 ([95% CI, 0.79–3.29]; P =0.17). In the expanded sequencing dataset, there was no relationship between rare LOF variants with CAD was also observed (odds ratio, 1.15 [95% CI, 0.89–1.49]; P =0.30). Consistent with the genetic analysis, we observed no relationship between circulating Corin concentrations with incident CAD events among 4744 participants of a prospective cohort study—sex-stratified hazard ratio per SD increment of 0.96 ([95% CI, 0.87–1.07], P =0.48). Conclusions: Functional testing of missense mutations improved the accuracy of rare variant association analysis. Despite compelling pathophysiology and a preliminary observation suggesting association, we observed no relationship between rare damaging variants in CORIN or circulating Corin concentrations with risk of CAD.

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