Statistics iRefIndex free 7.0

Interactions

BIND	62903
BIOGRID	23140	226496
DIP	0	0	0
HPRD	0	0	0	0
INTACT	24214	32627	0	0	117840
MINT	22100	37903	0	0	46689	79710
MPACT	0	0	0	0	0	0	0
MPPI	376	141	0	0	92	76	0	830
OPHID	2295	8356	0	0	7330	6482	0	183	47530
CORUM	0	0	0	0	0	0	0	0	0	0
	(30160)	(171076)	(0)	(0)	(59998)	(18149)	(0)	(315)	(32861)	(0)	(0)	(0)

Interactors

BIND	40790
BIOGRID	17313	29090
DIP	0	0	0
HPRD	0	0	0	0
INTACT	18310	20511	0	0	44616
MINT	16422	17286	0	0	23979	29217
MPACT	0	0	0	0	0	0	0
MPPI	675	435	0	0	592	520	0	865
OPHID	3307	5444	0	0	6036	4918	0	421	9645
CORUM	0	0	0	0	0	0	0	0	0	0
	BIND	BIOGRID	DIP	HPRD	INTACT	MINT	MPACT	MPPI	OPHID	CORUM	I2D	BIND_TRANSLATION
	(19341)	(5327)	(0)	(0)	(14646)	(3665)	(0)	(55)	(1841)	(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	193648	93957	91276(97.1466%)	62903(68.9152%)
grid	333977	329642	329185(99.8614%)	226496(68.8051%)
intact	140723	139787	139310(99.6588%)	117840(84.5883%)
mint	113258	113258	112159(99.0296%)	79710(71.0688%)
ophid	73257	73257	73160(99.8676%)	47530(64.9672%)
MPPI	1814	1814	1701(93.7707%)	830(48.7948%)
ALL	856677	751715	746791(99.3450%)	396249(53.0602%)

Assignment of protein interactors to ROGs (Table 3)

Source	Protein_Intractors	Assigned	%	Arbitrary	New	Unassigned	Unique proteins
bind	285482	276808	96.9616	0	4764	3905	40790
grid	36333	30259	83.2824	5869	1	204	29090
intact	108593	107842	99.3084	19	468	264	44616
mint	79057	78553	99.3625	2	276	226	29217
MPPI	3628	3461	95.3969	0	40	125	865
ophid	146423	146061	99.7528	103	253	6	9645
All	659516	642991	97.4944	5993	5802	4730	79283

ROG summary

Decimal_score	Binary_flag	String_score	Score_class	Proteins	Percentage	BIND	BioGrid	DIP	MINT	HPRD	OPHID	MPPI	MPACT	IntAct	CORUM	BIND_Translation
1	000000000000000001	P	1	564030	85.5218%	232081	28623	0	73314	0	125683	3023	0	101306	0	0
8194	000010000000000010	SI	1	12336	1.8705%	12336	0	0	0	0	0	0	0	0	0	0
65	000000000001000001	PD	1	8076	1.2245%	8073	0	0	3	0	0	0	0	0	0	0
41	000000000000101001	PVG	1	1583	0.2400%	0	1583	0	0	0	0	0	0	0	0	0
2	000000000000000010	S	1	543	0.0823%	0	44	0	244	0	0	0	0	255	0	0
129	000000000010000001	PM	1	528	0.0801%	473	0	0	0	0	0	32	0	23	0	0
10	000000000000001010	SV	1	251	0.0381%	0	0	0	14	0	0	0	0	237	0	0
8193	000010000000000001	PI	1	49	0.0074%	0	0	0	1	0	0	0	0	48	0	0
66	000000000001000010	SD	1	4	0.0006%	0	4	0	0	0	0	0	0	0	0	0
5	000000000000000101	PU	2	20307	3.0791%	0	0	0	289	0	19519	320	0	179	0	0
16386	000100000000000010	SE	2	5423	0.8223%	5423	0	0	0	0	0	0	0	0	0	0
16385	000100000000000001	PE	2	922	0.1398%	0	0	0	202	0	0	0	0	720	0	0
16449	000100000001000001	PDE	2	120	0.0182%	0	0	0	34	0	0	0	0	86	0	0
6	000000000000000110	SU	2	15	0.0023%	0	1	0	4	0	0	0	0	10	0	0
773	000000001100000101	PUO+	2	13	0.0020%	0	0	0	3	0	1	0	0	9	0	0
774	000000001100000110	SUO+	2	1	0.0002%	0	0	0	0	0	0	0	0	1	0	0
778	000000001100001010	SVO+	2	1	0.0002%	0	0	0	0	0	0	0	0	1	0	0
17	000000000000010001	PT	3	16060	2.4351%	11785	0	0	1632	0	122	46	0	2475	0	0
81	000000000001010001	PTD	3	1497	0.2270%	1496	0	0	1	0	0	0	0	0	0	0
8210	000010000000010010	STI	3	855	0.1296%	855	0	0	0	0	0	0	0	0	0	0
145	000000000010010001	PTM	3	184	0.0279%	132	0	0	0	0	0	35	0	17	0	0
8209	000010000000010001	PTI	3	13	0.0020%	0	0	0	0	0	0	0	0	13	0	0
18	000000000000010010	ST	3	3	0.0005%	0	0	0	0	0	0	0	0	3	0	0
26	000000000000011010	SVT	3	1	0.0002%	0	0	0	0	0	0	0	0	1	0	0
16402	000100000000010010	STE	4	316	0.0479%	316	0	0	0	0	0	0	0	0	0	0
789	000000001100010101	PUTO+	4	14	0.0021%	0	0	0	0	0	0	0	0	14	0	0
16401	000100000000010001	PTE	4	4	0.0006%	0	0	0	0	0	0	0	0	4	0	0
4393	000001000100101001	PVGL+	5	5854	0.8876%	0	5854	0	0	0	0	0	0	0	0	0
4357	000001000100000101	PUL+	5	84	0.0127%	0	0	0	0	0	84	0	0	0	0	0
131089	100000000000010001	PTQ	5	39	0.0059%	0	0	0	0	0	0	0	0	39	0	0
5381	000001010100000101	PUXL+	5	29	0.0044%	0	0	0	0	0	19	0	0	10	0	0
4354	000001000100000010	SL+	5	14	0.0021%	0	14	0	0	0	0	0	0	0	0	0
4373	000001000100010101	PUTL+	5	9	0.0014%	0	0	0	1	0	0	0	0	8	0	0
21	000000000000010101	PUT	5	7	0.0011%	0	0	0	2	0	5	0	0	0	0	0
1802	000000011100001010	SVOX+	5	4	0.0006%	0	0	0	0	0	0	0	0	4	0	0
5386	000001010100001010	SVXL+	5	2	0.0003%	0	0	0	1	0	0	0	0	1	0	0
131077	100000000000000101	PUQ	5	1	0.0002%	0	0	0	0	0	0	0	0	1	0	0
131073	100000000000000001	PQ	5	1	0.0002%	0	0	0	0	0	0	0	0	1	0	0
4394	000001000100101010	SVGL+	5	1	0.0002%	0	1	0	0	0	0	0	0	0	0	0
32769	001000000000000001	PY	6	8873	1.3454%	3051	4	0	2785	0	731	5	0	2297	0	0
81922	010100000000000010	SEN	6	4515	0.6846%	4515	0	0	0	0	0	0	0	0	0	0
32833	001000000001000001	PDY	6	755	0.1145%	755	0	0	0	0	0	0	0	0	0	0
65601	010000000001000001	PDN	6	559	0.0848%	52	0	0	247	0	253	5	0	2	0	0
65537	010000000000000001	PN	6	450	0.0682%	178	1	0	26	0	0	11	0	234	0	0
73729	010010000000000001	PIN	6	223	0.0338%	0	0	0	0	0	0	0	0	223	0	0
32770	001000000000000010	SY	6	120	0.0182%	0	0	0	25	0	0	0	0	95	0	0
32785	001000000000010001	PTY	6	32	0.0049%	32	0	0	0	0	0	0	0	0	0	0
81921	010100000000000001	PEN	6	26	0.0039%	0	0	0	3	0	0	22	0	1	0	0
81938	010100000000010010	STEN	6	19	0.0029%	19	0	0	0	0	0	0	0	0	0	0
65553	010000000000010001	PTN	6	8	0.0012%	0	0	0	0	0	0	0	0	8	0	0
81937	010100000000010001	PTEN	6	2	0.0003%	0	0	0	0	0	0	2	0	0	0	0
147473	100100000000010001	PTEQ	6	1	0.0002%	0	0	0	0	0	0	0	0	1	0	0
40961	001010000000000001	PIY	6	1	0.0002%	0	0	0	0	0	0	0	0	1	0	0
163841	101000000000000001	PYQ	6	1	0.0002%	0	0	0	0	0	0	0	0	1	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.	11011(1.6816%)
E	The protein reference was a retired NCBI Identifier or a UniProt identifier. NCBI's eUtils (E) were used to retrieve the current accession and/or sequence. For the identifiers still with no sequence after going through eUtils, seeunce information obtained form UniProt.	11348(1.7331%)
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.	7438(1.136%)
L	More than one possible assignment is possible (see + above). (e.g. isoforms for a geneid) In such a situation, references are picked using a ranking system (first look for RefSeq, then UniProt). Even after this ranking if ambiguity exists, the reference with lengthiest sequences selected. (Please note that this score class definition is different from originally published one)	5993(0.9153%)
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.	712(0.1087%)
+	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).	6026(0.9203%)
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.	5802(0.8861%)
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.	33(0.0050%)
I	The protein reference used was an NCBI GenInfo Identifier (I).	13477(2.0583%)
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.	20480(3.1278%)
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	19064(2.9115%)
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.	7697(1.1755%)
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'.	43(0.0066%)
P	The interaction record's primary (P) reference for the protein was used to make the assignment	630355(96.2699%)
S	One of the interaction record's secondary (S) references for the protein was used to make the assignment	24424(3.7301%)
Y	the accession was referring an accession which was removed from RefSeq or UniProt after beta3 build of iRefIndex (March 9th, 2009)	9782(1.4939%)
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	35(0.0053%)

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