Low-Rank and Sparse Matrix Decomposition for Genetic Interaction Data

Table 2

Clustering results.

(a) GO slim as benchmark gene set

# Clusters	Low-rank matrix		Original matrix
	JC-index	# Enriched^@	JC-index	# Enriched^@
200	0.063	190	0.022	46
150	0.070	138	0.032	44
100	0.084	90	0.050	50
50	0.088	30	0.067	24

(b) GO BP FAT as benchmark gene set

# Clusters	Low-rank matrix		Original matrix
	JC-index	# Enriched^@	JC-index	# Enriched^@
200	0.137	183	0.044	47
150	0.147	142	0.058	50
100	0.155	96	0.091	52
50	0.131	34	0.078	26

@: hypergeometric test applied to test the enrichment of gene sets. Significance level: FDR 0.05. # Cluster: the number of clusters to cut off the hierarchical clustering tree. # Enriched: the number of modules predicted by hierarchical clustering enriched in the GO iterms.