How complete are current yeast and human protein-interaction networks?

Table 3 Human protein-interaction assay false-positive rates: human datasets

Dataset	Number of unique interactions	Derived false-positive rates* (%)	Published false-positive rates (%)	Average false-positive rates (%)
Lehner and Fraser [40]	58,700 (9,396 core)	96, 94, 93 (86, 81, 69 core)	-	94 (79 core)
Rhodes et al. [23]	38,379	87, 86, 83	-	85
Stelzl et al. [15]	3,150 (902 core)	98, 98 (94,95 core)	70 [45]	98 (86 core)
Rual et al. [14]	2,611	87, 93	8-66 [14]^†, 54 [45]	58
Overall	100,242			90

*This interaction assay false-positive rate is derived using the method of D'haeseleer and Church [32] and a reference set of 20,296 unique interactions from HPRD [54], BIND [55], Reactome [56], and Ramani et al. [49]. Multiple values derive from different choices of comparison sets. ^†A range of six values (mean 48%) estimated from Table 1 of Rual et al. [14] by fitting the interaction set CCSB-HI1 as a linear combination of true positive (LCI-core) and false positive (all possible) interactions.

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