Two-way sparsity for time-varying networks with applications in genomics

DOI10.1214/20-AOAS1416zbMATH Open1478.62320arXiv1802.08114OpenAlexW3178220862MaRDI QIDQ2245162FDOQ2245162

Authors: Yanyan Li 

Publication date: 15 November 2021

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

Abstract: We propose a novel way of modelling time-varying networks, by inducing two-way sparsity on local models of node connectivity. This two-way sparsity separately promotes sparsity across time and sparsity across variables (within time). Separation of these two types of sparsity is achieved through a novel prior structure, which draws on ideas from the Bayesian lasso and from copula modelling. We provide an efficient implementation of the proposed model via a Gibbs sampler, and we apply the model to data from neural development. In doing so, we demonstrate that the proposed model is able to identify changes in genomic network structure that match current biological knowledge. Such changes in genomic network structure can then be used by neuro-biologists to identify potential targets for further experimental investigation.

Full work available at URL: https://arxiv.org/abs/1802.08114

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zbMATH Keywords

Bayesian inferencetime-varying networksgenomic networkssparse statistical models

Mathematics Subject Classification ID

Bayesian inference (62F15) Applications of statistics to biology and medical sciences; meta analysis (62P10) Probabilistic graphical models (62H22) Protein sequences, DNA sequences (92D20)

Cites Work

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Cited In (4)

• Sparse and low-rank matrix regularization for learning time-varying Markov networks
• TGCnA: temporal gene coexpression network analysis using a low-rank plus sparse framework
• Mixed-effect time-varying network model and application in brain connectivity analysis
• Dynamic networks with multi-scale temporal structure

Uses Software

• CODA
• glasso
• SCENIC
• SCODE
• ZIFA

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