ugraph {SubpathwayMiner} | R Documentation |
Undirected graph list constructed from KEGG pathways.
A list of graph
Generally, A metabolic pathway can be considered as a graph with chemical compounds as nodes and enzymes as edges.
We simplify metabolic pathways. Each metabolic pathway is converted to an undirected graph with enzymes as nodes. Two enzymes are connected by an edge if their corresponding reactions have a common compound. Chemical compounds are then omitted from graphs. .
If we consider the direction of reaction. The pathway will be a directed graph.
Note that each graph in uGraph
or dGraph
is constructed from metabolic pathways
and one pathway can only build not more than one graph.
Chunquan Li <lcqbio@yahoo.com.cn>
Ogata,H., Fujibuchi,W., Goto,S. and Kanehisa,M. (2000) A heuristic graph comparison algorithm and its application to detect functionally related enzyme clusters. Nucleic Acids Res., 20, 4021-4028.