Information-Theoretic Inference of Large Transcriptional Regulatory Networks

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• dynGENIE3: dynamical GENIE3 for the inference of gene networks from time series expression data · 2018
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• Gene Regulatory Network Inference from Single-Cell Data Using Multivariate Information Measures · 2017
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• Inference of gene regulatory networks incorporating multi-source biological knowledge via a state space model with L1 regularization. · 2014
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• Reverse engineering and identification in systems biology: strategies, perspectives and challenges · 2014
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• Robust non-linear differential equation models of gene expression evolution across <it>Drosophila </it>development · 2012
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• Beyond differential expression: the quest for causal mutations and effector molecules · 2012
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• Comparison of co-expression measures: mutual information, correlation, and model based indices · 2012
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• Inferring the conservative causal core of gene regulatory networks · 2010
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• Inferring Regulatory Networks from Expression Data Using Tree-Based Methods · 2010
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• TimeDelay-ARACNE: Reverse engineering of gene networks from time-course data by an information theoretic approach · 2010
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• minet: A R/Bioconductor Package for Inferring Large Transcriptional Networks Using Mutual Information · 2008
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