Table 3

Symbolic representation

SYMBOL

MEANING


D

The gene expression matrix

di

ithgene in D

δ

Signum threshold

G

Co-expression network

V

Set of vertices in G

E

Set of edges in G

Dist

Distance matrix

Dist(di, dj)

NMRS distance between genes di, dj∈D

Adj

Adjacency matrix

Adj(vi,vj)

1 if vi and vj are connected by an edge 0 otherwise

Gcon

Set of connected region

ith connected region

Set of vertices in ith connected region

Set of edges in ith connected region

Adjacency matrix of the ith connected region

ith network module

Dnet

Set of network modules obtained from G

TOM(vi,vj)

Topological Matrix value between vertices vi and vj

TOM(V1)

Average TOM of the set of vertices V1

TOM for ith connected region

Maximum spanning tree obtained from ith connected region

Set of edges in


The table 3 describes the various symbols that is used in ModuleMiner.

Mahanta et al. BMC Bioinformatics 2012 13(Suppl 13):S4   doi:10.1186/1471-2105-13-S13-S4

Open Data