Table 3

Comparison of annotations of PPIs common to literature-derived curated PPI databases
	Interacting Proteins		HPRD		DIP		BIND		MIPS		MINT		IntAct

			Detection method	PubMed ID	Detection method	PubMed ID	Detection method	PubMed ID	Detection method	PubMed ID	Detection method	PubMed ID	Detection method	PubMed ID

1	NFKB1	NFKB3	in vivo	9101089	Tandem Affinity Purification (TAP)	14743216	Gel retardation assays, three dimensional structure	15735750, 9738011, 9865693	-	-	anti tag coimmuno- precipitation	14743216	Comigration in gel, anti bait coip, tap	8246997, 8246997, 14743216
2	TNFRSF1A	TRADD	in vivo, in vitro, Yeast 2-hybrid	7758105, 8565075, 8612133	Experimental	9129204	Immuno- precipitation	11684708, 15247912, 9916731	coip: coimmuno precipitation	9916731	Coimmuno- precipitation, pull down, two hybrid	8565075, 8621670	anti bait coip, pull down, two hybrid	7758105
3	FADD	FAS	in vivo, in vitro, Yeast 2-hybrid	8967952, 7538907, 7536190	Two hybrid test	7538907	Immuno- precipitation	15665818, 15383280	coip: coimmuno precipitation	10196099	Coimmuno-precipitation, two hybrid	7536190, 7538907	anti tag coip, coip, pull down, two hybrid	7538907, 7536190, 7538907, 7538907
4	PEX19	PEX3	in vivo, in vitro, Yeast 2-hybrid	10704444, 12096124	-	-	two-hybrid-test	10430017, 12096124	coip: coimmuno precipitation, two hybrid	10430017	two hybrid, ubiquitin reconstruction	12096124, 16189514	far western blotting, two hybrid pooling	10704444, 16189514
5	CDK2	CDKN1A	in vitro	12839982	Two hybrid test	8242751	other	15232106	coip: coimmuno precipitation	8641969	protein array, pull down	15232106, 9284049	protein array, pull down	15232106, 8756624
6	PEX12	PEX5	in vivo, in vitro, Yeast 2-hybrid	10562279, 10837480, 12096124	-	-	two-hybrid-test	12096124	coip: coimmuno precipitation, two hybrid	10646847	two hybrid	12096124	anti tag coip, filter binding, two hybrid	10562279, 10562279, 12620231

Mathivanan et al. BMC Bioinformatics 2006 7(Suppl 5):S19 doi:10.1186/1471-2105-7-S5-S19