Pathway Enrichment Analysis Based on Bayesian Network
Construct Bayesian networks structures
Analysis of significant final BNs
Estimate parameters of BNs in control and disease states
Download data file
LASSO regression
Testing the equality regression coefficients
Simplification networks -- applied to unifying nodes
Estimate variance-covariance matrixes for any parameters of BNs
Maleknia et al. (2020) <doi:10.1101/2020.01.13.905448>. A novel pathway enrichment analysis package based on Bayesian network to investigate the topology features of the pathways. firstly, 187 kyoto encyclopedia of genes and genomes (KEGG) human non-metabolic pathways which their cycles were eliminated by biological approach, enter in analysis as Bayesian network structures. The constructed Bayesian network were optimized by the Least Absolute Shrinkage Selector Operator (lasso) and the parameters were learned based on gene expression data. Finally, the impacted pathways were enriched by Fisher’s Exact Test on significant parameters.
Useful links