New insights into protein-protein interaction data lead to increased estimates of the S. cerevisiae interactome size

Table 1 Estimated false negative rate of LowBP-LC restricted to interactions involving well-studied proteins.

Well-studied cutoff	*Uetz-Screen*	*Ito-Core*	*CCSB-YI1*	*Y2H-Union*	*Tarassov*	*HT-Union*
100	0.64	0.66	0.66	0.68	0.63	0.67
105	0.63	0.65	0.65	0.67	0.61	0.66
110	0.64	0.66	0.65	0.67	0.61	0.66
115	0.65	0.66	0.64	0.67	0.61	0.66
120	0.66	0.65	0.63	0.66	0.62	0.65
125	0.66	0.66	0.65	0.67	0.61	0.66
130	0.63	0.49	0.63	0.63	0.62	0.63
135	0.60	0.49	0.62	0.61	0.62	0.62
140	0.60	0.47	0.62	0.61	0.64	0.62
145	0.62	0.45	0.61	0.60	0.64	0.61
150	0.63	0.45	0.61	0.61	0.64	0.62

The false negative rate is computed separately with each high-throughput dataset, using a cutoff to consider proteins well-studied ranging from 100 to 150 and a reference FDR for CCSB-YI1 set at 0.25.

ISSN: 1471-2105