BayICE: a Bayesian hierarchical model for semireference-based deconvolution of bulk transcriptomic data

DOI10.1214/20-AOAS1376MaRDI QIDQ2233183zbMATH OpenOpenAlexFDO

Authors An-Shun Tai, Wen-Ping Hsieh, George C. Tseng

Publication date 14 October 2021

Published in The Annals of Applied Statistics (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1214/20-aoas1376

zbMATH Keywords

gene expressionstochastic search variable selectionhierarchical Bayesiancell proportionsemi-reference-based deconvolution

Mathematics Subject Classification ID

Bayesian inference (62F15) Applications of statistics to biology and medical sciences; meta analysis (62P10)

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Cites work

• A Bayesian False Discovery Rate for Multiple Testing
• Baycount: a Bayesian decomposition method for inferring tumor heterogeneity using RNA-seq counts
• Spike and Slab Gene Selection for Multigroup Microarray Data
• Spike and slab variable selection: frequentist and Bayesian strategies

Cited in

(7)

• ICeD-t provides accurate estimates of immune cell abundance in tumor samples by allowing for aberrant gene expression patterns
• Loss-Function Learning for Digital Tissue Deconvolution
• BayICE
• A Bayesian Multivariate Mixture Model for High Throughput Spatial Transcriptomics
• Geometric structure guided model and algorithms for complete deconvolution of gene expression data
• Immune classification of osteosarcoma
• Estimating Cell Type Composition Using Isoform Expression One Gene at a Time

Describes a project that uses

Uses Software

• ISOpureR
• dtangle
• BayCount
• spikeslab
• R

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