Statistics iRefIndex 5.0

From irefindex

Summary

  • Total interactions : 871,172
  • Total distinct interactions (based on RIGID): 357,156
  • Total distinct proteins (based on ROGID) : 83,938

This page lists statistics for our internal version of iRefIndex that includes all of the data from sources used for the current build Sources_iRefIndex_4.0. This full build of the iRefIndex contains data that cannot be redistributed according to usage policies of the source databases (namely, from DIP, HPRD and MPact databases). Please contact ian.donaldson at biotek.uio.no if you would like to obtain a copy of the full iRefIndex build under an academic, collaborative agreement.

The data that are freely available at ftp://ftp.no.embnet.org/irefindex/data/current/ are a subset of the full build that we can freely redistribute according to the usage policies of the source databases. Please refer to http://irefindex.uio.no/wiki/Statistics_iRefIndex_free_4.0 for statistics that are applicable to this free dataset.

Interactions available from major taxonomies

Top 15 uncorrected taxonomy groups in iRefIndex (Taxonomy identifiers as they appear in original source)

NCBI taxonomy identifier Name Number of interactions
4932 Saccharomyces cerevisiae 115570
9606 Homo sapiens 103700
7227 Drosophila melanogaster 46240
40674 Mammalia 35023
197 Campylobacter jejuni 11998
6239 Caenorhabditis elegans 11793
284812 Schizosaccharomyces pombe 972h- 11556
10090 Mus musculus 9964
562 Escherichia coli 8512
3702 Arabidopsis thaliana 5348
160 Treponema pallidum 3646
83333 Escherichia coli K-12 3490
10116 Rattus norvegicus 3477
1142 Synechocystis 3057
36329 Plasmodium falciparum 3D7 2731

Top 15 corrected taxonomy groups in iRefIndex (Taxonomy identifiers corrected using sequence database information)

4932 Saccharomyces cerevisiae 115562
9606 Homo sapiens 114618
7227 Drosophila melanogaster 46244
197 Campylobacter jejuni 11998
4896 Schizosaccharomyces pombe 11831
6239 Caenorhabditis elegans 11793
10090 Mus musculus 8569
83333 Escherichia coli K-12 7482
3702 Arabidopsis thaliana 5354
155864 Escherichia coli O157:H7 EDL933 4928
160 Treponema pallidum 3646
1148 Synechocystis sp. PCC 6803 3166
36329 Plasmodium falciparum 3D7 2731
10116 Rattus norvegicus 2650
85962 Helicobacter pylori 26695 1598

Interactions (Corresponds to Table 6 in PMID 18823568)

BIND 62896
BIOGRID 20564 164770
DIP 25930 29004 56430
HPRD 2947 2016 858 39966
INTACT 24400 26946 25008 8442 113877
MINT 22066 34683 30052 6563 45338 76602
MPACT 6938 8489 6793 0 6132 6426 13321
MPPI 385 27 41 304 89 71 0 826
OPHID 2226 1357 899 18063 7248 6396 0 183 47297
CORUM 116 18 29 403 122 66 0 9 158 1919
BIND BIOGRID DIP HPRD INTACT MINT MPACT MPPI OPHID CORUM
(25793) (111301) (13496) (16472) (56805) (15495) (1132) (235) (26461) (1398)

Interactors

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

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

ROG summary (Corresponds to Table 4 in PMID 18823568)

Scores (Corresponds to Table 2 in PMID 18823568)