A genome-wide cis-regulatory element discovery method based on promoter sequences and gene co-expression networks

BMC Genomics

Table 1 Size of the comparison networks

	Annotated co-regulation network		Chip-chip co-binding network		similarity matrix of ref[34]	Cis-similarity matrix
	Nodes	Edges	Nodes	Edges	Nodes	Nodes
Original size	612	10,599	2,397	178,202	3,146	3,000
Similarity matrix of ref [34]	446	5,816	1,491	77,597	3,146	1,909
Cis-similarity matrix	467	6,554	1,439	73,982	1,909	3,000
Intersect with both	360	3,984	1,006	39,693	1,909	1,909

This table shows the size of the intersections of the networks that are restricted by the nodes (genes names) of the sub-networks. 'Cis-similarity matrix' represents our predicted co-regulatory similarity matrix.

ISSN: 1471-2164