Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks

A General Framework for Weighted Gene Co-Expression Network Analysis

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Uncovering the overlapping community structure of complex networks in nature and society

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Hierarchical Organization of Modularity in Metabolic Networks

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Transcriptional Regulatory Networks in Saccharomyces cerevisiae

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An integrative genomics approach to infer causal associations between gene expression and disease

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Variations in DNA elucidate molecular networks that cause disease

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The landscape of genetic complexity across 5,700 gene expression traits in yeast

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Integrating Genetic and Network Analysis to Characterize Genes Related to Mouse Weight

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An integrative genomics approach to the reconstruction of gene networks in segregating populations

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Integrated Systems Approach Identifies Genetic Nodes and Networks in Late-Onset Alzheimer’s Disease

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Methods of integrating data to uncover genotype-phenotype interactions

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Using probabilistic estimation of expression residuals (PEER) to obtain increased power and interpretability of gene expression analyses

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The role of regulatory variation in complex traits and disease

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Computational solutions to large‐scale data management and analysis

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Systems genetics approaches to understand complex traits

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Passive and active DNA methylation and the interplay with genetic variation in gene regulation

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Unveiling the role of network and systems biology in drug discovery

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Large eQTL meta-analysis reveals differing patterns between cerebral cortical and cerebellar brain regions

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Validation of candidate causal genes for obesity that affect shared metabolic pathways and networks

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Passing Messages between Biological Networks to Refine Predicted Interactions

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A Differential Wiring Analysis of Expression Data Correctly Identifies the Gene Containing the Causal Mutation

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Integrative Genomics Reveals Novel Molecular Pathways and Gene Networks for Coronary Artery Disease

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Stitching together multiple data dimensions reveals interacting metabolomic and transcriptomic networks that modulate cell regulation

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Transformative Network Modeling of Multi-omics Data Reveals Detailed Circuits, Key Regulators, and Potential Therapeutics for Alzheimer’s Disease

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Integrative metabolomics‐genomics approach reveals key metabolic pathways and regulators of Alzheimer's disease

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Multiscale causal networks identify VGF as a key regulator of Alzheimer’s disease

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Evolutionary insight from whole‐genome sequencing of experimentally evolved microbes

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Multiscale network modeling of oligodendrocytes reveals molecular components of myelin dysregulation in Alzheimer’s disease

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Modularity in the Hippo signaling pathway

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Drug target prioritization by perturbed gene expression and network information

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Prediction of Causal Candidate Genes in Coronary Artery Disease Loci

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Transcriptome organization for chronic alcohol abuse in human brain

Farris, S. P., Arasappan, D., Hunicke-Smith, S., Harris, R. A., & Mayfield, R. D. (2015) · Molecular Psychiatry · doi:10.1038/mp.2014.159 · Cited by 111

Causal graphical models in systems genetics: A unified framework for joint inference of causal network and genetic architecture for correlated phenotypes

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Dosage suppression genetic interaction networks enhance functional wiring diagrams of the cell

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Meditation and vacation effects have an impact on disease-associated molecular phenotypes

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Analytical tools and current challenges in the modern era of neuroepigenomics

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Joint analysis of SNP and gene expression data in genetic association studies of complex diseases

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Microglial INPP5D limits plaque formation and glial reactivity in the PSAPP mouse model of Alzheimer's disease

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Transcription Factor MAFF (MAF Basic Leucine Zipper Transcription Factor F) Regulates an Atherosclerosis Relevant Network Connecting Inflammation and Cholesterol Metabolism

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Network models of primary melanoma microenvironments identify key melanoma regulators underlying prognosis

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RNA-Seq Reveals Novel Transcriptional Reorganization in Human Alcoholic Brain

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Prediction of Genetic Interactions Using Machine Learning and Network Properties

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Evolving toward a human-cell based and multiscale approach to drug discovery for CNS disorders

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SCING: Inference of robust, interpretable gene regulatory networks from single cell and spatial transcriptomics

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Identification of the Transcription Factor ATF3 as a Direct and Indirect Regulator of the LDLR

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Interpreting noncoding genetic variation in complex traits and human disease

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