Difference between revisions of "Statistics iRefIndex 17.0"

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== Interactions available from major taxonomies (corrected) ==
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Taxons of the protein interactors have been corrected to correspond to the taxon provided in the protein sequence record regardless of the taxon listed in the interaction record.  See  PMID 18823568  for details. 
  
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{| cellspacing="0" cellpadding="5"
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| align="center" style="background:#f0f0f0;"|'''NCBI taxonomy identifier''' ||align="center" style="background:#f0f0f0;"|'''Scientific name''' ||align="center" style="background:#f0f0f0;"|'''Number of interactions'''
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|-
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| 9606 ||Homo sapiens ||732100
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|-
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| 559292 ||Saccharomyces cerevisiae S288C ||139956
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|-
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| 7227 ||Drosophila melanogaster ||76585
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|-
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| 10090 ||Mus musculus ||70996
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|-
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| 3702 ||Arabidopsis thaliana ||59726
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|-
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| 6239 ||Caenorhabditis elegans ||32382
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|-
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| 83333 ||Escherichia coli K-12 ||16968
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|-
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| 10116 ||Rattus norvegicus ||14516
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|-
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| 316407 ||Escherichia coli str. K-12 substr. W3110 ||12822
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|-
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| 4896 ||Schizosaccharomyces pombe ||12432
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|-
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| 192222 ||Campylobacter jejuni subsp. jejuni NCTC 11168 =ATCC 700819 ||11930
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|-
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| 632 ||Yersinia pestis ||4166
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|-
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| 243276 ||Treponema pallidum subsp. pallidum str. Nichols ||3643
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|-
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| 1111708 ||Synechocystis sp. PCC 6803 substr. Kazusa ||3275
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|}
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== Summary of mapping interaction records to RIGs (redundant interaction groups) ==
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'''Source''': Interaction data source.  '''Total records''': Total number of interaction records found in source.  '''Protein-only interactors''':Total number of interactions involving only protein interactors.  '''PPI assigned to RIGID''': Number of interactions where all protein interactors were assigned to a ROG. Percentage of column 3 is shown.  '''Unique RIGIDs (interactions)''': Number of unique protein interactions and complexes (RIGID's) found in the data source (also expressed as a percentage of column 4).  For a description of the term RIGs, see [[README_MITAB2.6_for_iRefIndex#Understanding_the_iRefIndex_MITAB_format]] and the original paper PMID 18823568.
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{| cellspacing="0" cellpadding="5"
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| align="center" style="background:#f0f0f0;"|'''Source''' ||align="center" style="background:#f0f0f0;"|'''Total records''' ||align="center" style="background:#f0f0f0;"|'''Protein-related interactions''' ||align="center" style="background:#f0f0f0;"|'''PPI assigned to RIGID''' ||align="center" style="background:#f0f0f0;"|'''%''' ||align="center" style="background:#f0f0f0;"|'''Unique RIGIDs''' ||align="center" style="background:#f0f0f0;"|'''%'''
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|-
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| BAR ||10396 ||10396 ||10383 ||99.87 ||10369 ||99.87
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|-
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| BHF_UCL ||2341 ||2327 ||2327 ||100.00 ||1514 ||65.06
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|-
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| BIND ||157736 ||91309 ||68064 ||74.54 ||49513 ||72.74
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|-
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| BIND_TRANSLATION ||192923 ||84138 ||82233 ||97.74 ||60855 ||74.00
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|-
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| BIOGRID ||1760395 ||873924 ||869987 ||99.55 ||646657 ||74.33
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|-
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| CORUM ||4274 ||4274 ||4270 ||99.91 ||4018 ||94.10
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|-
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| DIP ||81731 ||80134 ||79878 ||99.68 ||77468 ||96.98
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|-
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| HPIDB ||6038 ||5769 ||5769 ||100.00 ||2432 ||42.16
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|-
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| HPRD ||83022 ||83022 ||82983 ||99.95 ||40530 ||48.84
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|-
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| HURI ||171545 ||168756 ||168750 ||100.00 ||51482 ||30.51
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|-
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| INNATEDB ||18408 ||18408 ||6903 ||37.50 ||4815 ||69.75
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|-
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| INTACT ||651130 ||597534 ||597404 ||99.98 ||345369 ||57.81
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|-
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| INTCOMPLEX ||2821 ||2261 ||2261 ||100.00 ||2226 ||98.45
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|-
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| MATRIXDB ||37217 ||36866 ||36866 ||100.00 ||22361 ||60.65
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|-
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| MBINFO ||1084 ||1057 ||1057 ||100.00 ||539 ||50.99
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|-
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| MINT ||165946 ||165136 ||165118 ||99.99 ||61283 ||37.11
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|-
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| MPACT ||16504 ||16504 ||16373 ||99.21 ||13398 ||81.83
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|-
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| MPIDB ||1505 ||1504 ||1425 ||94.75 ||893 ||62.67
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|-
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| MPPI ||1814 ||1758 ||1578 ||89.76 ||776 ||49.18
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|-
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| QUICKGO ||75574 ||60741 ||58630 ||96.52 ||29763 ||50.76
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|-
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| REACTOME ||141996 ||141996 ||141844 ||99.89 ||126328 ||89.06
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|-
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| SPIKE ||29686 ||29686 ||28327 ||95.42 ||27828 ||98.24
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|-
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| UNIPROTPP ||12863 ||12775 ||12775 ||100.00 ||7233 ||56.62
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|-
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| VIRUSHOST ||15000 ||15000 ||15000 ||100.00 ||9397 ||62.65
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|-
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| (All) ||3641949 ||2505275 ||2460205 ||98.20 ||1185907 ||48.20
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|}

Revision as of 20:11, 30 June 2020

Interactions available from major taxonomies (corrected)

Taxons of the protein interactors have been corrected to correspond to the taxon provided in the protein sequence record regardless of the taxon listed in the interaction record. See PMID 18823568 for details.

NCBI taxonomy identifier Scientific name Number of interactions
9606 Homo sapiens 732100
559292 Saccharomyces cerevisiae S288C 139956
7227 Drosophila melanogaster 76585
10090 Mus musculus 70996
3702 Arabidopsis thaliana 59726
6239 Caenorhabditis elegans 32382
83333 Escherichia coli K-12 16968
10116 Rattus norvegicus 14516
316407 Escherichia coli str. K-12 substr. W3110 12822
4896 Schizosaccharomyces pombe 12432
192222 Campylobacter jejuni subsp. jejuni NCTC 11168 =ATCC 700819 11930
632 Yersinia pestis 4166
243276 Treponema pallidum subsp. pallidum str. Nichols 3643
1111708 Synechocystis sp. PCC 6803 substr. Kazusa 3275

Summary of mapping interaction records to RIGs (redundant interaction groups)

Source: Interaction data source. Total records: Total number of interaction records found in source. Protein-only interactors:Total number of interactions involving only protein interactors. PPI assigned to RIGID: Number of interactions where all protein interactors were assigned to a ROG. Percentage of column 3 is shown. Unique RIGIDs (interactions): Number of unique protein interactions and complexes (RIGID's) found in the data source (also expressed as a percentage of column 4). For a description of the term RIGs, see README_MITAB2.6_for_iRefIndex#Understanding_the_iRefIndex_MITAB_format and the original paper PMID 18823568.

Source Total records Protein-related interactions PPI assigned to RIGID % Unique RIGIDs %
BAR 10396 10396 10383 99.87 10369 99.87
BHF_UCL 2341 2327 2327 100.00 1514 65.06
BIND 157736 91309 68064 74.54 49513 72.74
BIND_TRANSLATION 192923 84138 82233 97.74 60855 74.00
BIOGRID 1760395 873924 869987 99.55 646657 74.33
CORUM 4274 4274 4270 99.91 4018 94.10
DIP 81731 80134 79878 99.68 77468 96.98
HPIDB 6038 5769 5769 100.00 2432 42.16
HPRD 83022 83022 82983 99.95 40530 48.84
HURI 171545 168756 168750 100.00 51482 30.51
INNATEDB 18408 18408 6903 37.50 4815 69.75
INTACT 651130 597534 597404 99.98 345369 57.81
INTCOMPLEX 2821 2261 2261 100.00 2226 98.45
MATRIXDB 37217 36866 36866 100.00 22361 60.65
MBINFO 1084 1057 1057 100.00 539 50.99
MINT 165946 165136 165118 99.99 61283 37.11
MPACT 16504 16504 16373 99.21 13398 81.83
MPIDB 1505 1504 1425 94.75 893 62.67
MPPI 1814 1758 1578 89.76 776 49.18
QUICKGO 75574 60741 58630 96.52 29763 50.76
REACTOME 141996 141996 141844 99.89 126328 89.06
SPIKE 29686 29686 28327 95.42 27828 98.24
UNIPROTPP 12863 12775 12775 100.00 7233 56.62
VIRUSHOST 15000 15000 15000 100.00 9397 62.65
(All) 3641949 2505275 2460205 98.20 1185907 48.20
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