Graph rigidity reveals well-constrained regions of chromosome conformation embeddings

BMC Bioinformatics

Table 3 Summary of chromosome conformation graphs

Experiment	# Vertices	Max intra-chromosomal	Max inter-chromosomal
		frequency	frequency
Lieberman-Aiden et al. GM06690	2,882	29,931	6,068
Lieberman-Aiden et al. K562	2,882	41,124	3,331
Duan et al.	4,193	4,683	107
Tanizawa et al.	619	35.25	13.75
Bau et al. GM12878	55	5,823	-
Bau et al. K562	55	13,686	-

Summary of chromosome conformation graphs used for testing embeddability in three dimensions. The frequencies in Tanizawa et al. are experimentally normalized, and Bau et al. focus on a 500kbp segment of human chromosome 16 as opposed to the entire genome.

ISSN: 1471-2105