Statistics iRefIndex free 5.0

• This is the statisticts fro the iRefIndex non-proprietary version (downloadable from ftp), for full statistics please visit http://irefindex.uio.no/wiki/Statistics_iRefIndex_5.0

Summary

• Total interactions : 648,955
• Total distinct interactions (based on RIGID): 340,674 (52.50 % of total interactions)
• Total distinct proteins (based on ROGID) : 80,354

Interactions (Corresponds to Table 6 in PMID 18823568)

BIND	62895
BIOGRID	20557	164770
DIP	0	0	0
HPRD	0	0	0	0
INTACT	24393	26965	0	0	113878
MINT	22085	34774	0	0	45434	77540
MPACT	0	0	0	0	0	0	0
MPPI	387	27	0	0	89	73	0	826
OPHID	2226	1357	0	0	7248	6417	0	183	47297
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
	(31051)	(120578)	(0)	(0)	(58846)	(17573)	(0)	(312)	(36276)	(0)	(0)

Interactors

BIND	40782
BIOGRID	14505	27694
DIP	0	0	0
HPRD	0	0	0	0
INTACT	18200	16988	0	0	42060
MINT	16365	15162	0	0	23565	28854
MPACT	0	0	0	0	0	0	0
MPPI	672	218	0	0	578	510	0	859
OPHID	3253	2324	0	0	5809	4794	0	421	9626
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
	(20064)	(8662)	(0)	(0)	(13198)	(3631)	(0)	(49)	(2256)	(0)	(0)

Summary of mapping interaction records to RIGs (Corresponds to Table 5 in PMID 18823568)

Source	Total records	Protein-only interactors	PPI Assigned to RIGID	Unique RIGIDs
bind	193648	93957	91264(97.1338%)	62895(68.9155%)
grid	242126	242126	241823(99.8749%)	164770(68.1366%)
intact	133302	132525	132078(99.6627%)	113878(86.2203%)
mint	110788	110788	109195(98.5621%)	77540(71.0106%)
ophid	73257	73257	72907(99.5222%)	47297(64.8731%)
MPPI	1814	1814	1688(93.0540%)	826(48.9336%)
ALL	754935	654467	648955(99.1578%)	340674(52.4958%)

Assignment of protein interactors to ROGs (Corresponds to Table 3 in PMID 18823568)

Source	Protein_Intractors	Assigned	%	Arbitrary	New	Unassigned	Unique proteins
bind	285482	273657	95.8579	0	7887	3938	40782
grid	29599	19351	65.3772	10144	6	98	27694
intact	100752	97167	96.4418	19	3323	243	42060
mint	77936	74746	95.9069	2	2711	477	28854
MPPI	3628	3456	95.2591	0	30	142	859
ophid	146423	145362	99.2754	103	699	259	9626
All	643820	613739	95.3277	10268	14656	5157	80354

ROG summary (Corresponds to Table 4 in PMID 18823568)

Decimal_score	Binary_flag	String_score	Score_class	Proteins	Percentage	BIND	BioGrid	DIP	MINT	HPRD	OPHID	MPPI	MPACT	IntAct	CORUM
1	000000000000000001	P	1	534492	83.0189%	232419	7502	0	72231	0	125686	3023	0	93631	0
66	000000000001000010	SD	1	2	0.0003%	0	2	0	0	0	0	0	0	0	0
8193	000010000000000001	PI	1	50	0.0078%	0	2	0	0	0	0	0	0	48	0
8194	000010000000000010	SI	1	12412	1.9279%	12336	76	0	0	0	0	0	0	0	0
129	000000000010000001	PM	1	523	0.0812%	473	1	0	0	0	0	32	0	17	0
10	000000000000001010	SV	1	240	0.0373%	0	0	0	9	0	0	0	0	231	0
130	000000000010000010	SM	1	577	0.0896%	0	577	0	0	0	0	0	0	0	0
2	000000000000000010	S	1	7931	1.2319%	0	7464	0	231	0	0	0	0	236	0
65	000000000001000001	PD	1	9580	1.4880%	8083	1494	0	3	0	0	0	0	0	0
774	000000001100000110	SUO+	2	1	0.0002%	0	0	0	0	0	0	0	0	1	0
778	000000001100001010	SVO+	2	1	0.0002%	0	0	0	0	0	0	0	0	1	0
16385	000100000000000001	PE	2	184	0.0286%	0	0	0	0	0	0	0	0	184	0
16386	000100000000000010	SE	2	5413	0.8408%	5413	0	0	0	0	0	0	0	0	0
6	000000000000000110	SU	2	706	0.1097%	0	694	0	4	0	0	0	0	8	0
5	000000000000000101	PU	2	20322	3.1565%	0	0	0	293	0	19519	320	0	190	0
773	000000001100000101	PUO+	2	12	0.0019%	0	0	0	3	0	1	0	0	8	0
8209	000010000000010001	PTI	3	12	0.0019%	0	0	0	0	0	0	0	0	12	0
146	000000000010010010	STM	3	1	0.0002%	0	1	0	0	0	0	0	0	0	0
17	000000000000010001	PT	3	16115	2.5030%	11871	0	0	1620	0	122	46	0	2456	0
18	000000000000010010	ST	3	1490	0.2314%	0	1487	0	0	0	0	0	0	3	0
8210	000010000000010010	STI	3	905	0.1406%	855	50	0	0	0	0	0	0	0	0
26	000000000000011010	SVT	3	1	0.0002%	0	0	0	0	0	0	0	0	1	0
145	000000000010010001	PTM	3	170	0.0264%	132	0	0	0	0	0	35	0	3	0
81	000000000001010001	PTD	3	1487	0.2310%	1486	0	0	1	0	0	0	0	0	0
16402	000100000000010010	STE	4	315	0.0489%	315	0	0	0	0	0	0	0	0	0
789	000000001100010101	PUTO+	4	14	0.0022%	0	0	0	0	0	0	0	0	14	0
16401	000100000000010001	PTE	4	3	0.0005%	0	0	0	0	0	0	0	0	3	0
22	000000000000010110	SUT	4	1	0.0002%	0	1	0	0	0	0	0	0	0	0
131089	100000000000010001	PTQ	5	38	0.0059%	0	0	0	0	0	0	0	0	38	0
1802	000000011100001010	SVOX+	5	3	0.0005%	0	0	0	0	0	0	0	0	3	0
131073	100000000000000001	PQ	5	1	0.0002%	0	0	0	0	0	0	0	0	1	0
131077	100000000000000101	PUQ	5	1	0.0002%	0	0	0	0	0	0	0	0	1	0
12546	000011000100000010	SLI+	5	6735	1.0461%	0	6735	0	0	0	0	0	0	0	0
5386	000001010100001010	SVXL+	5	2	0.0003%	0	0	0	1	0	0	0	0	1	0
4357	000001000100000101	PUL+	5	84	0.0130%	0	0	0	0	0	84	0	0	0	0
4354	000001000100000010	SL+	5	2997	0.4655%	0	2997	0	0	0	0	0	0	0	0
21	000000000000010101	PUT	5	7	0.0011%	0	0	0	2	0	5	0	0	0	0
4373	000001000100010101	PUTL+	5	9	0.0014%	0	0	0	1	0	0	0	0	8	0
4482	000001000110000010	SML+	5	412	0.0640%	0	412	0	0	0	0	0	0	0	0
5381	000001010100000101	PUXL+	5	29	0.0045%	0	0	0	0	0	19	0	0	10	0
163841	101000000000000001	PYQ	6	1	0.0002%	0	0	0	0	0	0	0	0	1	0
86274	010101000100000010	SLEN+	6	2	0.0003%	0	2	0	0	0	0	0	0	0	0
81938	010100000000010010	STEN	6	24	0.0037%	24	0	0	0	0	0	0	0	0	0
81937	010100000000010001	PTEN	6	5	0.0008%	3	0	0	0	0	0	2	0	0	0
81922	010100000000000010	SEN	6	5403	0.8392%	5397	4	0	2	0	0	0	0	0	0
81921	010100000000000001	PEN	6	2845	0.4419%	2462	0	0	44	0	98	28	0	213	0
65601	010000000001000001	PDN	6	1	0.0002%	1	0	0	0	0	0	0	0	0	0
65553	010000000000010001	PTN	6	10	0.0016%	0	0	0	0	0	0	0	0	10	0
65537	010000000000000001	PN	6	6365	0.9886%	0	0	0	2665	0	601	0	0	3099	0
32833	001000000001000001	PDY	6	1	0.0002%	1	0	0	0	0	0	0	0	0	0
32785	001000000000010001	PTY	6	2	0.0003%	2	0	0	0	0	0	0	0	0	0
32770	001000000000000010	SY	6	43	0.0067%	0	0	0	23	0	0	0	0	20	0
32769	001000000000000001	PY	6	682	0.1059%	271	0	0	326	0	29	0	0	56	0
196625	110000000000010001	PTNQ	6	1	0.0002%	0	0	0	0	0	0	0	0	1	0

Scores (Corresponds to Table 2 in PMID 18823568)

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.	11071(1.7335%)
E	The protein reference was a retired NCBI Identifier. NCBI's eUtils (E) were used to retrieve the current accession and/or sequence.	14194(2.2225%)
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)	10270(1.608%)
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.	1683(0.2635%)
+	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).	10301(1.6129%)
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.	14656(2.2948%)
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.	31(0.0049%)
I	The protein reference used was an NCBI GenInfo Identifier (I).	20114(3.1494%)
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.	21186(3.3172%)
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	20610(3.2271%)
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.	247(0.0387%)
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'.	42(0.0066%)
P	The interaction record's primary (P) reference for the protein was used to make the assignment	593046(92.8574%)
S	One of the interaction record's secondary (S) references for the protein was used to make the assignment	45617(7.1426%)
Y	the accession was referring an accession which was removed from RefSeq or UniProt after beta3 build of iRefIndex (March 9th, 2009)	729(0.1141%)
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	34(0.0053%)