• norsk
    • English
  • English 
    • norsk
    • English
  • Login
View Item 
  •   Home
  • Folkehelseinstituttet
  • Publikasjoner fra CRIStin FHI
  • View Item
  •   Home
  • Folkehelseinstituttet
  • Publikasjoner fra CRIStin FHI
  • View Item
JavaScript is disabled for your browser. Some features of this site may not work without it.

A Bayesian mixed modeling approach for estimating heritability

Nustad, Haakon Egdetveit; Page, Christian; Reiner, Andrew Henry; Zucknick, Manuela; LeBlanc, Marissa
Peer reviewed, Journal article
Published version
Thumbnail
View/Open
s12919-018-0131-z.pdf (942.2Kb)
URI
https://hdl.handle.net/11250/3008224
Date
2018
Metadata
Show full item record
Collections
  • Artikler [3776]
  • Publikasjoner fra CRIStin FHI [5984]
Original version
BMC Proceedings. 2018, 12 (31), 117-122.   10.1186/s12919-018-0131-z
Abstract
Background A Bayesian mixed model approach using integrated nested Laplace approximations (INLA) allows us to construct flexible models that can account for pedigree structure. Using these models, we estimate genome-wide patterns of DNA methylation heritability (h2), which are currently not well understood, as well as h2 of blood lipid measurements. Methods We included individuals from the Genetics of Lipid Lowering Drugs and Diet Network (GOLDN) study with Infinium 450 K cytosine-phosphate-guanine (CpG) methylation and blood lipid data pre- and posttreatment with fenofibrate in families with up to three-generation pedigrees. For genome-wide patterns, we constructed 1 model per CpG with methylation as the response variable, with a random effect to model kinship, and age and gender as fixed effects. Results In total, 425,791 CpG sites pre-, but only 199,027 CpG sites posttreatment were found to have nonzero heritability. Across these CpG sites, the distributions of h2 estimates are similar in pre- and posttreatment (pre: median = 0.31, interquartile range [IQR] = 0.16; post: median = 0.34, IQR = 0.20). Blood lipid h2 estimates were similar pre- and posttreatment with overlapping 95% credibility intervals. Heritability was nonzero for treatment effect, that is, the difference between pre- and posttreatment blood lipids. Estimates for triglycerides h2 are 0.48 (pre), 0.42 (post), and 0.21 (difference); likewise for high-density lipoprotein cholesterol h2 the estimates are 0.61, 0.68, and 0.10. Conclusions We show that with INLA, a fully Bayesian approach to estimate DNA methylation h2 is possible on a genome-wide scale. This provides uncertainty assessment of the estimates, and allows us to perform model selection via deviance information criterion (DIC) to identify CpGs with strong evidence for nonzero heritability.
 
A Bayesian mixed modeling approach for estimating heritability
 
Journal
BMC Proceedings

Contact Us | Send Feedback

Privacy policy
DSpace software copyright © 2002-2019  DuraSpace

Service from  Unit
 

 

Browse

ArchiveCommunities & CollectionsBy Issue DateAuthorsTitlesSubjectsDocument TypesJournalsThis CollectionBy Issue DateAuthorsTitlesSubjectsDocument TypesJournals

My Account

Login

Statistics

View Usage Statistics

Contact Us | Send Feedback

Privacy policy
DSpace software copyright © 2002-2019  DuraSpace

Service from  Unit