A Novel Topology-Based Pathway Enrichment Analysis Approach
Calculate the area under the cumulative enrichment curve (AUEC) based ...
Download the latest KGML files
Filter the nodes in pathways
Obtain the nodes
Obtain the genes from enzymes
Obtain the genes from KGenes
Obtain the genes from KO
Recontructe the network based on pathways
Obtain genes from KGnenes
Obtain the genes from KO
Convert the non-metaboloc pathway to network
Get the type names of nodes
Get the pathway from KEGG database.
Get the products
Get the reaction of nodes in pathways
Get the relation of nodes in pathways
Obtain the graph of pathways
Obtain the information about nodes in KEGG database
Get the type of nodes
Obtain the graph of pathways
Get the products
Get the reaction of nodes in pathways
Get the relation of nodes in pathways
Obtain the information about nodes in KEGG database
Obtain the types of genes in pathways
Import the latest relationship information.
Obtain the relationship of nodes and genes
Restract the relationship between nodes and genes.
Intergate list of node,gene and the score of node.
Reconstruct pathways to networks
Recontructe the network based on pathways
TPEA: A Novel Pathway enrichment analysis approach based on topologica...
Statistical test and calculate the significance
Update the latest data from KEGG database
Check up the latest date of KGML files
The visualization of interested pathway based on the genes you input, ...
We described a novel Topology-based pathway enrichment analysis, which integrated the global position of the nodes and the topological property of the pathways in Kyoto Encyclopedia of Genes and Genomes Database. We also provide some functions to obtain the latest information about pathways to finish pathway enrichment analysis using this method.