Journal article
BEDwARS: a robust Bayesian approach to bulk gene expression deconvolution with noisy reference signatures
Genome biology, Vol.24(1), pp.178-178
08/03/2023
DOI: 10.1186/s13059-023-03007-7
PMCID: PMC10399072
PMID: 37537644
Abstract
Differential gene expression in bulk transcriptomics data can reflect change of transcript abundance within a cell type and/or change in the proportions of cell types. Expression deconvolution methods can help differentiate these scenarios. BEDwARS is a Bayesian deconvolution method designed to address differences between reference signatures of cell types and corresponding true signatures underlying bulk transcriptomic profiles. BEDwARS is more robust to noisy reference signatures and outperforms leading in-class methods for estimating cell type proportions and signatures. Application of BEDwARS to dihydropyridine dehydrogenase deficiency identified the possible involvement of ciliopathy and impaired translational control in the etiology of the disorder.
Details
- Title: Subtitle
- BEDwARS: a robust Bayesian approach to bulk gene expression deconvolution with noisy reference signatures
- Creators
- Saba Ghaffari - University of Illinois Urbana-ChampaignKelly J Bouchonville - University of Iowa, PathologyEhsan Saleh - University of Illinois Urbana-ChampaignRemington E Schmidt - Mayo ClinicSteven M Offer - Mayo ClinicSaurabh Sinha - The Wallace H. Coulter Department of Biomedical Engineering
- Resource Type
- Journal article
- Publication Details
- Genome biology, Vol.24(1), pp.178-178
- DOI
- 10.1186/s13059-023-03007-7
- PMID
- 37537644
- PMCID
- PMC10399072
- ISSN
- 1474-7596
- eISSN
- 1474-760X
- Grant note
- R35 GM130119 / NIGMS NIH HHS R01 CA251065 / NCI NIH HHS
- Language
- English
- Date published
- 08/03/2023
- Academic Unit
- Pathology
- Record Identifier
- 9984618634202771
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