Statistics iRefIndex 3.0

Summary

• Total distinct interactions : 358, 599
• Total distinct proteins : 77,821

The present collection includes 105,342 distinct human interactions and complexes involving 20,289 distinct human proteins.

Interactions (Corresponds to Table 6 in PMID 18823568)

BIND	62831
BIOGRID	20701	155527
DIP	25938	29041	55126
HPRD	2882	1903	753	37956
INTACT	24375	25775	24853	8021	110545
MINT	22409	32693	30271	6927	42208	73729
MPACT	6904	8427	6777	0	6079	6458	13320
MPPI	385	26	31	305	88	106	0	825
OPHID	2201	1309	809	17895	7177	7141	0	183	47303
CORUM	112	19	22	386	120	65	0	9	158	1917
	BIND	BIOGRID	DIP	HPRD	INTACT	MINT	MPACT	MPPI	OPHID	CORUM
	(25768)	(103361)	(12549)	(15276)	(56308)	(15199)	(1136)	(227)	(26529)	(1409)

Interactors

BIND	40738
BIOGRID	14397	27164
DIP	15136	12915	19263
HPRD	3281	2419	1026	9539
INTACT	18079	16677	15356	5749	41370
MINT	16296	14899	14788	4695	22877	28043
MPACT	4638	4494	4630	0	4857	4728	4972
MPPI	669	209	252	430	575	551	0	858
OPHID	3210	2261	1027	7339	5720	4807	1	422	9631
CORUM	1536	736	528	1843	2289	1750	0	321	1849	3579
	BIND	BIOGRID	DIP	HPRD	INTACT	MINT	MPACT	MPPI	OPHID	CORUM
	(18505)	(8050)	(1498)	(1078)	(12260)	(3191)	(17)	(38)	(1293)	(626)

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	91179(97.0433%)	62831(68.9095%)
grid	229399	229399	229101(99.8701%)	155527(67.8858%)
dip	56638	56638	55275(97.5935%)	55126(99.7304%)
intact	127880	127179	126757(99.6682%)	110545(87.2102%)
mint	104847	104847	103520(98.7343%)	73729(71.2220%)
HPRD	38037	38037	38026(99.9711%)	37956(99.8159%)
ophid	73257	73257	72907(99.5222%)	47303(64.8813%)
MPACT	16503	16503	16285(98.6790%)	13320(81.7931%)
MPPI	1814	1814	1685(92.8886%)	825(48.9614%)
CORUM	2104	2104	2102(99.9049%)	1917(91.1989%)
ALL	844127	743735	736837(99.0725%)	358599(48.6673%)

• The value of total unique interactions was edited on 08June 2009. Please note that the sum of the "Unique RIGIDs" column is different from the figure given as the ALL.

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

Source	Protein_Intractors	Assigned	%	Arbitrary	New	Unassigned	Unique proteins
bind	285482	273644	95.8533	0	7742	4096	40738
CORUM	10316	10314	99.9806	0	0	2	3579
dip	19935	17773	89.1548	1198	393	571	19263
grid	28943	18921	65.3733	9923	5	94	27164
HPRD	9565	9494	99.2577	50	16	5	9539
intact	97256	93646	96.2881	17	3367	226	41370
mint	80543	77276	95.9438	6	2780	481	28043
MPACT	40349	40112	99.4126	0	0	237	4972
MPPI	3628	3456	95.2591	0	27	145	858
ophid	146423	145362	99.2754	103	699	259	9631
All	722440	689998	95.5094	11297	15029	6116	82657

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	MIIP	MPACT
1	000000000000000001	P	1	564539	78.1434%	232690	7275	0	74838	0	125715	3023	30666
130	000000000010000010	SM	1	546	0.0756%	0	546	0	0	0	0	0	0
66	000000000001000010	SD	1	3	0.0004%	0	2	1	0	0	0	0	0
65	000000000001000001	PD	1	9522	1.3180%	8086	1417	0	19	0	0	0	0
42	000000000000101010	SVG	1	147	0.0203%	0	0	0	0	147	0	0	0
8193	000010000000000001	PI	1	58	0.0080%	0	2	0	0	0	0	0	0
810	000000001100101010	SVGO+	1	58	0.0080%	0	0	0	0	58	0	0	0
129	000000000010000001	PM	1	522	0.0723%	473	1	0	0	0	0	32	0
8194	000010000000000010	SI	1	12395	1.7157%	12336	59	0	0	0	0	0	0
10	000000000000001010	SV	1	90	0.0125%	0	0	83	0	0	0	0	0
2	000000000000000010	S	1	34020	4.7090%	0	7523	16598	242	2510	0	0	6927
554	000000001000101010	SVGO	1	615	0.0851%	0	0	0	0	615	0	0	0
778	000000001100001010	SVO+	2	1	0.0001%	0	0	0	0	0	0	0	0
16385	000100000000000001	PE	2	211	0.0292%	0	0	0	0	0	0	0	0
16386	000100000000000010	SE	2	5402	0.7477%	5402	0	0	0	0	0	0	0
774	000000001100000110	SUO+	2	1	0.0001%	0	0	0	0	0	0	0	0
773	000000001100000101	PUO+	2	7	0.0010%	0	0	0	1	0	0	0	0
5	000000000000000101	PU	2	23016	3.1859%	0	0	0	426	0	19520	320	2519
6	000000000000000110	SU	2	657	0.0909%	0	559	79	5	6	0	0	0
146	000000000010010010	STM	3	1	0.0001%	0	1	0	0	0	0	0	0
8210	000010000000010010	STI	3	903	0.1250%	855	48	0	0	0	0	0	0
8209	000010000000010001	PTI	3	13	0.0018%	0	0	0	0	0	0	0	0
17	000000000000010001	PT	3	26549	3.6749%	11871	0	0	1739	0	122	46	0
18	000000000000010010	ST	3	8645	1.1966%	0	1487	1009	0	6146	0	0	0
26	000000000000011010	SVT	3	1	0.0001%	0	0	0	0	0	0	0	0
81	000000000001010001	PTD	3	1484	0.2054%	1484	0	0	0	0	0	0	0
145	000000000010010001	PTM	3	168	0.0233%	132	0	0	0	0	0	35	0
22	000000000000010110	SUT	4	15	0.0021%	0	1	3	0	11	0	0	0
16401	000100000000010001	PTE	4	3	0.0004%	0	0	0	0	0	0	0	0
16402	000100000000010010	STE	4	315	0.0436%	315	0	0	0	0	0	0	0
790	000000001100010110	SUTO+	4	1	0.0001%	0	0	0	0	1	0	0	0
789	000000001100010101	PUTO+	4	14	0.0019%	0	0	0	0	0	0	0	0
131073	100000000000000001	PQ	5	2	0.0003%	0	0	0	0	0	0	0	0
21	000000000000010101	PUT	5	35	0.0048%	0	0	0	6	0	5	0	0
12546	000011000100000010	SLI+	5	6562	0.9083%	0	6562	0	0	0	0	0	0
131077	100000000000000101	PUQ	5	1	0.0001%	0	0	0	0	0	0	0	0
131089	100000000000010001	PTQ	5	38	0.0053%	0	0	0	0	0	0	0	0
4373	000001000100010101	PUTL+	5	9	0.0012%	0	0	0	1	0	0	0	0
4362	000001000100001010	SVL+	5	36	0.0050%	0	0	36	0	0	0	0	0
4357	000001000100000101	PUL+	5	84	0.0116%	0	0	0	0	0	84	0	0
4354	000001000100000010	SL+	5	4077	0.5643%	0	2967	1110	0	0	0	0	0
4374	000001000100010110	SUTL+	5	52	0.0072%	0	0	52	0	0	0	0	0
4394	000001000100101010	SVGL+	5	47	0.0065%	0	0	0	0	47	0	0	0
4482	000001000110000010	SML+	5	394	0.0545%	0	394	0	0	0	0	0	0
5381	000001010100000101	PUXL+	5	32	0.0044%	0	0	0	5	0	19	0	0
5382	000001010100000110	SUXL+	5	3	0.0004%	0	0	0	0	3	0	0	0
5386	000001010100001010	SVXL+	5	1	0.0001%	0	0	0	0	0	0	0	0
86274	010101000100000010	SLEN+	6	3	0.0004%	0	2	1	0	0	0	0	0
82034	010100000001110010	STGDEN	6	2	0.0003%	0	0	0	0	2	0	0	0
81938	010100000000010010	STEN	6	24	0.0033%	24	0	0	0	0	0	0	0
81937	010100000000010001	PTEN	6	5	0.0007%	3	0	0	0	0	0	2	0
81922	010100000000000010	SEN	6	5708	0.7901%	5371	3	334	0	0	0	0	0
81921	010100000000000001	PEN	6	2755	0.3813%	2343	0	0	59	0	98	25	0
65601	010000000001000001	PDN	6	1	0.0001%	1	0	0	0	0	0	0	0
65553	010000000000010001	PTN	6	10	0.0014%	0	0	0	0	0	0	0	0
65537	010000000000000001	PN	6	6520	0.9025%	0	0	58	2721	14	601	0	0
196625	110000000000010001	PTNQ	6	1	0.0001%	0	0	0	0	0	0	0	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.	11012(1.5373%)
E	The protein reference was a retired NCBI Identifier. NCBI's eUtils (E) were used to retrieve the current accession and/or sequence.	14428(2.0142%)
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.	869(0.1213%)
L	More than one possible assignment is possible (see + above). The assignment with the largest (L) SEGUID is arbitrarily chosen (see Methods)	11300(1.5775%)
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.	1631(0.2277%)
+	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).	11382(1.5889%)
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.	15029(2.0981%)
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.	697(0.0973%)
I	The protein reference used was an NCBI GenInfo Identifier (I).	19931(2.7824%)
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.	23927(3.3402%)
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	38288(5.3451%)
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.	996(0.139%)
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(0.0059%)
P	The interaction record's primary (P) reference for the protein was used to make the assignment	635599(88.7307%)
S	One of the interaction record's secondary (S) references for the protein was used to make the assignment	80725(11.2693%)
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	36(0.0050%)