iRefIndex/PBR

Interactions

BIND	9645
BIOGRID	0	0
DIP	0	0	0
HPRD	0	0	0	0
INTACT	0	0	0	0	0
MINT	0	0	0	0	0	0
MPACT	0	0	0	0	0	0	0
MPPI	0	0	0	0	0	0	0	0
OPHID	0	0	0	0	0	0	0	0	0
CORUM	0	0	0	0	0	0	0	0	0	0
I2D	0	0	0	0	0	0	0	0	0	0	0
	BIND	BIOGRID	DIP	HPRD	INTACT	MINT	MPACT	MPPI	OPHID	CORUM	I2D
	(9645)	(0)	(0)	(0)	(0)	(0)	(0)	(0)	(0)	(0)	(0)

Interactors

BIND	4963
BIOGRID	0	0
DIP	0	0	0
HPRD	0	0	0	0
INTACT	0	0	0	0	0
MINT	0	0	0	0	0	0
MPACT	0	0	0	0	0	0	0
MPPI	0	0	0	0	0	0	0	0
OPHID	0	0	0	0	0	0	0	0	0
CORUM	0	0	0	0	0	0	0	0	0	0
I2D	0	0	0	0	0	0	0	0	0	0	0
	BIND	BIOGRID	DIP	HPRD	INTACT	MINT	MPACT	MPPI	OPHID	CORUM	I2D
	(4963)	(0)	(0)	(0)	(0)	(0)	(0)	(0)	(0)	(0)	(0)

Summary of mapping interaction records to RIGs (Table 5)

Source	Total records	Protein-only interactors	PPI Assigned to RIGID	Unique RIGIDs
bind	18115	18115	16175(89.2906%)	9645(59.6291%)
ALL	18115	18115	16175(89.2906%)	9645(59.6291%)

Assignment of protein interactors to ROGs (Table 3)

Source	Protein_Intractors	Assigned	%	Arbitrary	New	Unassigned	Unique proteins
bind	36231	25689	70.9034	8209	0	2333	4963
All	36231	25689	70.9034	8209	0	2333	4963

ROG summary

Decimal_score	Binary_flag	String_score	Score_class	Proteins	Percentage	BIND	BioGrid	DIP	MINT	HPRD	OPHID	MPPI	MPACT	IntAct	CORUM
2	000000000000000010	S	1	24458	67.5057%	24458	0	0	0	0	0	0	0	0	0
6	000000000000000110	SU	2	104	0.2870%	104	0	0	0	0	0	0	0	0	0
18	000000000000010010	ST	3	1126	3.1078%	1126	0	0	0	0	0	0	0	0	0
4354	000001000100000010	SL+	5	8209	22.6574%	8209	0	0	0	0	0	0	0	0	0
32770	001000000000000010	SY	6	1	0.0028%	1	0	0	0	0	0	0	0	0	0

Scores (Table 2)

Character	Description of feature (when the value is 1)	Frequency
D	The source database (D) listed in the interaction record is different than what is expected for the given accession for the protein. In specific cases, this difference is tolerated and the assignment is made.	0(0.0%)
E	The protein reference was a retired NCBI Identifier. NCBI's eUtils (E) were used to retrieve the current accession and/or sequence.	0(0.0%)
G	The interaction record's reference for the protein was an EntrezGene (G) identifier. The corresponding products of the gene were used to make the assignment.	0(0.0%)
L	More than one possible assignment is possible (see + above). The assignment with the largest (L) SEGUID is arbitrarily chosen (see Methods)	8209(24.2168%)
M	The protein reference listed by the interaction record was a typographical modification (M) of a known accession. In specific cases, this variation is tolerated and the assignment is made.	0(0.0%)
+	More than one possible assignment is possible (+). This case may arise in one of three ways. 1) The reference supplied by the interaction record requires updating but more than one possibility exists. For example, Q7XJL8 was found to be a secondary accession in three separate UniProt records (Q3EBZ2, Q6DR20, and Q8GWA9). 2) The secondary references supplied by the interaction record point to more than one unique protein sequence. 3) An EntrezGene identifier is provided in the interaction record as a protein reference. This identifier points to more than one protein product. An attempt is made to resolve this ambiguity as indicated by ROG score features O, X or L (see below).	8209(24.2168%)
N	The protein reference, taxonomy identifier and sequence for the protein as provided in the interaction record are used to make a new entry in the SEGUID table. The protein interactor is assigned the newly (N) generated ROG identifier.	0(0.0%)
O	More than one possible assignment is possible (see + above). The assignment chosen has a SEGUID that is identical to the SEGUID of the original (O) sequence provided in the interaction record.	0(0.0%)
I	The protein reference used was an NCBI GenInfo Identifier (I).	0(0.0%)
U	The protein reference listed in the interaction record and used to make the assignment was a secondary UniProt accession and was updated (U) to a primary UniProt accession in order to make the assignment.	104(0.3068%)
T	The taxonomy (T) identifier for the protein (as supplied by the interaction record) differed from what was found in the protein sequence record. This discrepancy was tolerated and the assignment was made	1126(3.3217%)
V	The protein reference listed by the interaction record contained version (V) information that was ignored. For example, RefSeq accession.version NP_012420.1 was listed but treated as RefSeq accession NP_012420.	0(0.0%)
Q	The protein reference used to make the assignment was of the type 'see-also'. See PSI-MI Path: entrySet/entry/interactorList/interactor/xref/primaryRef/refType = 'see-also'.	0(0.0%)
P	The interaction record's primary (P) reference for the protein was used to make the assignment	0(0.0%)
S	One of the interaction record's secondary (S) references for the protein was used to make the assignment	33898(100.0%)
Y	the accession was referring an accession which was removed from RefSeq or UniProt after beta3 build of iRefIndex (March 9th, 2009)	1(0.0030%)
X	More than one possible assignment is possible (see + above). The assignment chosen has the same taxonomy (X) identifier as listed in the interaction record	0(0.0%)