Structured hierarchical models for probabilistic inference from perturbation screening data

DOI10.1214/21-AOAS1580MaRDI QIDQ2170453zbMATH OpenOpenAlexWikidataFDO

Authors Simon Dirmeier, Niko Beerenwinkel

Publication date 5 September 2022

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

Full work available at URL https://doi.org/10.1214/21-aoas1580

zbMATH Keywords

biological networkgenetic perturbation screenhierarchical modelsinterventional dataMarkov random fieldsprobabilistic models

Mathematics Subject Classification ID

Computational methods for problems pertaining to statistics (62-08) Bayesian inference (62F15) Probabilistic graphical models (62H22) Applications of statistics to biology and medical sciences; meta analysis (62P10)

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Cites work

• A default conjugate prior for variance components in generalized linear mixed models (Comment on article by Browne and Draper)
• A hidden spatial-temporal Markov random field model for network-based analysis of time course gene expression data
• Bayesian data analysis.
• Biological Sequence Analysis
• Graphical models, exponential families, and variational inference
• scientific article; zbMATH DE number 6122810 (Why is no real title available?)
• MCMC using Hamiltonian dynamics
• Philosophy and the practice of Bayesian statistics
• Prior distributions for variance parameters in hierarchical models (Comment on article by Browne and Draper)
• Probabilistic graphical models.
• The no-U-turn sampler: adaptively setting path lengths in Hamiltonian Monte Carlo
• The Selection of Prior Distributions by Formal Rules
• Tree-guided group lasso for multi-response regression with structured sparsity, with an application to eQTL mapping

Cited in

(4)

• netprioR: a probabilistic model for integrative hit prioritisation of genetic screens
• Structure learning in nested effects models
• Structural model correlation using large admissible perturbations incognate space
• Bayesian hierarchical modeling for signaling pathway inference from single cell interventional data

Describes a project that uses

Uses Software

• edgeR
• PyMC
• STRING

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