KEGG Metabolic Relation Network (Directed)

Donated on 11/27/2011

KEGG Metabolic pathways modeled as directed relation network. Variety of graphical features presented.

Dataset Characteristics

Multivariate, Univariate, Text

Subject Area

Biology

Associated Tasks

Classification, Regression, Clustering

Feature Type

Integer, Real

# Instances

53414

# Features

-

Dataset Information

Additional Information

KEGG Metabolic pathways can be realized into network. Two kinds of network / graph can be formed. These include Reaction Network and Relation Network. In Reaction network, Substrate or Product compound are considered as Node and genes are treated as edge. Whereas in the relation network, Substrate and Product componds are considered as Edges while enzyme and genes are placed as nodes. We tool large number of metabolic pathways from KEGG XML. They were modeled into the graph as described above. With the help of Cytoscape tool, variety of network features were compunted.

Has Missing Values?

No

Variables Table

Variable NameRoleTypeDescriptionUnitsMissing Values
no
no
no
no
no
no
no
no
no
no

0 to 10 of 24

Additional Variable Information

a) Pathway text b) Nodes integer (min:2, max:116) c) Edges integer (min:1, max:606) d) Connected Components integer (min:1, max:13) e) Network Diameter integer (min:1, max:30) f) Network Radius integer (min:1, max:2) g) Shortest Path integer (min:1, max:3277) h) Characteristic Path Length real (min:1, max:13.543) i) Avg.num.Neighbours real (min:1, max:14.163) j) Isolated Nodes integer (min:0, max:1) k) Number of Self Loops integer (min:0, max:0) l) Multi-edge Node Pair integer (min:0, max:57) m) NeighborhoodConnectivity real (min:1, max:17.41) n) Outdegree real (min:0.5, max:7.1639) o) Stress real (min:0, max:13870.674) p) SelfLoops integer (min:0, max:0) q) PartnerOfMultiEdgedNodePairs real (min:0, max:4.89) r) EdgeCount real (min:1, max:14.328) s) BetweennessCentrality real (min:0, max:0.33) t) Indegree real (min:0.5, max:7.1639) u) Eccentricity real (min:0.083, max:25.069) v) ClosenessCentrality real (min:0.083, max:1) w) AverageShortestPathLength real (min:0.083, max:11.754) x) ClusteringCoefficient real (min:0, max:0.746)

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Creators

Muhammad Naeem

Sohail Asghar

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