Sparse factor model for co-expression networks with an application using prior biological knowledge

DOI10.1515/SAGMB-2015-0002zbMATH Open1343.92184OpenAlexW2387609470WikidataQ38447540 ScholiaQ38447540MaRDI QIDQ306641FDOQ306641

Authors: Yuna Blum, Magalie Houée-Bigot, David Causeur 

Publication date: 1 September 2016

Published in: Statistical Applications in Genetics and Molecular Biology (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.1515/sagmb-2015-0002

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zbMATH Keywords

factor modelsparsityregularized estimationhigh dimensiongene ontologyrelevance network

Mathematics Subject Classification ID

Applications of statistics to biology and medical sciences; meta analysis (62P10) General biostatistics (92B15) Genetics and epigenetics (92D10) Systems biology, networks (92C42) Software, source code, etc. for problems pertaining to information and communication theory (94-04)

Cites Work

• Multiple hypothesis testing adjusted for latent variables, with an application to the AGEMAP gene expression data
• (SOFTWARE) FAMT
• A factor model approach to multiple testing under dependence
• A penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysis
• Coordinate descent algorithms for lasso penalized regression
• Title not available (Why is that?)
• A general framework for multiple testing dependence
• A survey of statistical network models
• Sparse inverse covariance estimation with the graphical lasso
• Model selection through sparse maximum likelihood estimation for multivariate Gaussian or binary data
• High-Dimensional Sparse Factor Modeling: Applications in Gene Expression Genomics
• EM algorithms for ML factor analysis
• A General Framework for Weighted Gene Co-Expression Network Analysis
• Note on “Comparison of Model Selection for Regression” by Vladimir Cherkassky and Yunqian Ma

Cited In (1)

• Sparse regulatory networks

Uses Software

• WGCNA
• glasso
• glmnet
• dynamicTreeCut
• FAMT
• leapp
• PMA

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