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Through high-throughput microarray technique, we can monitor gene coexpression trends across various conditions, treatments, or samples from abundant gene expression profiles (Data S3) because different subcellular compartments often show distinct subcellular environments and proteins found within the same localization play similar function roles on time synchronization [57].
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Gene coexpression cluster from which the gene is taken.
We performed weighted gene coexpression network analysis to identify coexpressed gene modules [ 31].
Transcriptome data were clustered using weighted gene coexpression network analysis (WGCNA), a tailored method for identification of highly coexpressed gene sets23.
Horvath, S. & Dong, J. Geometric interpretation of gene coexpression network analysis.
Weighted gene coexpression network analysis confirmed these findings and further revealed alterations in mitochondrial function.
Using gene coexpression network analysis, we derived functional modules, regulatory mediators, and higher-order topological relationships between genes and identified 50 gene coexpression modules in developing myocardium that were not present in normal adult tissue.
Nine of the 59 modules from the gene coexpression network were associated with clinical improvement.
Of 50 fetal gene coexpression modules, 3 (6%) were reproduced in hypertrophied myocardium and 7 (14%) were reproduced in failing myocardium.
Differential and comparative gene coexpression analyses suggest a change in coexpression relationships and regulators controlling common and/or specific biological processes.
Bucy, R.P. et al. Single cell analysis of cytokine gene coexpression during CD4+ T-cell phenotype development.
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