HBA-DEALS: accurate and simultaneous identification of differential expression and splicing using hierarchical Bayesian analysis

We present Hierarchical Bayesian Analysis of Differential Expression and ALternative Splicing (HBA-DEALS), which simultaneously characterizes differential expression and splicing in cohorts. HBA-DEALS attains state of the art or better performance for both expression and splicing and allows genes to...

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Autores principales: Karlebach, Guy, Hansen, Peter, Veiga, Diogo FT, Steinhaus, Robin, Danis, Daniel, Li, Sheng, Anczukow, Olga, Robinson, Peter N
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2020
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7358203/
https://www.ncbi.nlm.nih.gov/pubmed/32660516
http://dx.doi.org/10.1186/s13059-020-02072-6
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author Karlebach, Guy
Hansen, Peter
Veiga, Diogo FT
Steinhaus, Robin
Danis, Daniel
Li, Sheng
Anczukow, Olga
Robinson, Peter N
author_facet Karlebach, Guy
Hansen, Peter
Veiga, Diogo FT
Steinhaus, Robin
Danis, Daniel
Li, Sheng
Anczukow, Olga
Robinson, Peter N
author_sort Karlebach, Guy
collection PubMed
description We present Hierarchical Bayesian Analysis of Differential Expression and ALternative Splicing (HBA-DEALS), which simultaneously characterizes differential expression and splicing in cohorts. HBA-DEALS attains state of the art or better performance for both expression and splicing and allows genes to be characterized as having differential gene expression, differential alternative splicing, both, or neither. HBA-DEALS analysis of GTEx data demonstrated sets of genes that show predominant DGE or DAST across multiple tissue types. These sets have pervasive differences with respect to gene structure, function, membership in protein complexes, and promoter architecture.
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spelling pubmed-73582032020-07-17 HBA-DEALS: accurate and simultaneous identification of differential expression and splicing using hierarchical Bayesian analysis Karlebach, Guy Hansen, Peter Veiga, Diogo FT Steinhaus, Robin Danis, Daniel Li, Sheng Anczukow, Olga Robinson, Peter N Genome Biol Method We present Hierarchical Bayesian Analysis of Differential Expression and ALternative Splicing (HBA-DEALS), which simultaneously characterizes differential expression and splicing in cohorts. HBA-DEALS attains state of the art or better performance for both expression and splicing and allows genes to be characterized as having differential gene expression, differential alternative splicing, both, or neither. HBA-DEALS analysis of GTEx data demonstrated sets of genes that show predominant DGE or DAST across multiple tissue types. These sets have pervasive differences with respect to gene structure, function, membership in protein complexes, and promoter architecture. BioMed Central 2020-07-13 /pmc/articles/PMC7358203/ /pubmed/32660516 http://dx.doi.org/10.1186/s13059-020-02072-6 Text en © The Author(s) 2020 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Method
Karlebach, Guy
Hansen, Peter
Veiga, Diogo FT
Steinhaus, Robin
Danis, Daniel
Li, Sheng
Anczukow, Olga
Robinson, Peter N
HBA-DEALS: accurate and simultaneous identification of differential expression and splicing using hierarchical Bayesian analysis
title HBA-DEALS: accurate and simultaneous identification of differential expression and splicing using hierarchical Bayesian analysis
title_full HBA-DEALS: accurate and simultaneous identification of differential expression and splicing using hierarchical Bayesian analysis
title_fullStr HBA-DEALS: accurate and simultaneous identification of differential expression and splicing using hierarchical Bayesian analysis
title_full_unstemmed HBA-DEALS: accurate and simultaneous identification of differential expression and splicing using hierarchical Bayesian analysis
title_short HBA-DEALS: accurate and simultaneous identification of differential expression and splicing using hierarchical Bayesian analysis
title_sort hba-deals: accurate and simultaneous identification of differential expression and splicing using hierarchical bayesian analysis
topic Method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7358203/
https://www.ncbi.nlm.nih.gov/pubmed/32660516
http://dx.doi.org/10.1186/s13059-020-02072-6
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