Difference between revisions of "Statistics iRefIndex 5.0"

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== Interactions available from major taxonomies ==
 
== Interactions available from major taxonomies ==
 
=== Top 15 uncorrected taxonomy groups in iRefIndex (Taxonomy identifiers as they appear in original source)===
 
=== Top 15 uncorrected taxonomy groups in iRefIndex (Taxonomy identifiers as they appear in original source)===
{| {{table}}
+
 
| align="center" style="background:#f0f0f0;"|'''NCBI taxonomy identifier'''
 
| align="center" style="background:#f0f0f0;"|''' Name'''
 
| align="center" style="background:#f0f0f0;"|'''Number of interactions'''
 
| align="center" style="background:#f0f0f0;"|''''''
 
|-
 
| 4932|| Saccharomyces cerevisiae        ||115570||
 
|-
 
| 9606|| Homo sapiens                    ||103695||
 
|-
 
| 7227|| Drosophila melanogaster        ||46260||
 
|-
 
| 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||
 
|-
 
|
 
|}
 
 
* Full list [[http://irefindex.uio.no/wikifiles//images/9/90/Interactions_by_taxonomy_beta5_full.pdf]]
 
* Full list [[http://irefindex.uio.no/wikifiles//images/9/90/Interactions_by_taxonomy_beta5_full.pdf]]
  

Revision as of 19:14, 30 July 2009

Summary

  • Total interactions : 871,172
  • Total distinct interactions (based on RIGID): 357,170
  • Total distinct proteins (based on ROGID) : 83.940

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_5.0. 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_5.0 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)

  • Full list [[1]]

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

4932 Saccharomyces cerevisiae 115562
9606 Homo sapiens 114613
7227 Drosophila melanogaster 46264
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
  • Full list [[2]]

Interactions (Corresponds to Table 6 in PMID 18823568)

BIND 62895
BIOGRID 20557 164770
DIP 25930 28958 56429
HPRD 2947 2016 862 39966
INTACT 24398 26968 25004 8442 113878
MINT 0 0 0 0 0 0
MPACT 6938 8489 6793 0 6132 0 13321
MPPI 385 27 41 304 89 0 0 826
OPHID 2226 1357 902 18063 7248 0 0 183 47297
CORUM 116 18 29 403 122 0 0 9 158 1919
I2D 0 0 0 0 0 0 0 0 0 0 0
BIND BIOGRID DIP HPRD INTACT MINT MPACT MPPI OPHID CORUM I2D
(26011) (117308) (14001) (17210) (66510) (0) (1135) (240) (26932) (1409) (0)

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)