Applied Graph-Mining Algorithms to Study Biomolecular Interaction Networks

Table 2

A summary of module detection methods by the strategy employed.

Methods	Module detection strategy	Specification		References
		Topological	Both
MCODE	Seed-and-extend	x		[6]
SPICi	Seed-and-extend	x		[46]
Kernel set	Seed-and-extend		x	[47]
PRODISTIN	Hierarchical clustering		x	[49]
ADJW and Hall	Hierarchical clustering	x		[52]
Divisive	Hierarchical clustering	x		[53]
Edge clustering	Hierarchical clustering	x		[54, 55]
RNSC	Optimization	x		[56]
jActiveModules	Optimization		x	[59]
Modularity density	Optimization	x		[60]
HOTNET	Optimization		x	[61]
Semi-supervised	Probabilistic		x	[62]
Bayesian network	Probabilistic		x	[63]
MCL	Probabilistic	x		[64]
Frequent subgraph	Frequency-based method	x		[3, 67, 68]