Show simple item record

dc.contributor.authorDenault, William Robert Paul
dc.contributor.authorJugessur, Astanand
dc.description.abstractBackground We present here a computational shortcut to improve a powerful wavelet-based method by Shim and Stephens (Ann Appl Stat 9(2):665–686, 2015. called WaveQTL that was originally designed to identify DNase I hypersensitivity quantitative trait loci (dsQTL). Results WaveQTL relies on permutations to evaluate the significance of an association. We applied a recent method by Zhou and Guan (J Am Stat Assoc 113(523):1362–1371, 2017. to boost computational speed, which involves calculating the distribution of Bayes factors and estimating the significance of an association by simulations rather than permutations. We called this simulation-based approach “fast functional wavelet” (FFW), and tested it on a publicly available DNA methylation (DNAm) dataset on colorectal cancer. The simulations confirmed a substantial gain in computational speed compared to the permutation-based approach in WaveQTL. Furthermore, we show that FFW controls the type I error satisfactorily and has good power for detecting differentially methylated regions. Conclusions Our approach has broad utility and can be applied to detect associations between different types of functions and phenotypes. As more and more DNAm datasets are being made available through public repositories, an attractive application of FFW would be to re-analyze these data and identify associations that might have been missed by previous efforts. The full R package for FFW is freely available at GitHub
dc.rightsNavngivelse 4.0 Internasjonal*
dc.titleDetecting diferentially methylated regions using a fast wavelet‑based approach to functional association analysisen_US
dc.typeJournal articleen_US
dc.typePeer revieweden_US
dc.rights.holderCopyright The Author(s) 2021, corrected publication 2021en_US
dc.source.journalBMC Bioinformaticsen_US
dc.identifier.citationBMC Bioinformatics. 2021, 22, 61.en_US

Files in this item


This item appears in the following Collection(s)

Show simple item record

Navngivelse 4.0 Internasjonal
Except where otherwise noted, this item's license is described as Navngivelse 4.0 Internasjonal