Difference between revisions of "Statistics iRefIndex 14.0"

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== Data source information ==
 
  
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| align="center" style="background:#f0f0f0;"|'''Source''' ||align="center" style="background:#f0f0f0;"|'''Release date''' ||align="center" style="background:#f0f0f0;"|'''Release URL''' ||align="center" style="background:#f0f0f0;"|'''Download files''' ||align="center" style="background:#f0f0f0;"|'''Version'''
 
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== Interactions available from major taxonomies ==
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These statistics apply to the extended version of iRefIndex.  See the [[iRefIndex_Release_Notes]] 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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| 9606 ||Homo sapiens ||462552
 
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|-
 
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| 559292 ||Saccharomyces cerevisiae S288c ||108979
 
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|-
 
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| 7227 ||Drosophila melanogaster ||60885
 
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|-
 
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| 10090 ||Mus musculus ||38566
 
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|-
 
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| 40674 ||Mammalia ||36345
 
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|-
 
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| 4932 ||Saccharomyces cerevisiae ||35561
 
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|-
 
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| 3702 ||Arabidopsis thaliana ||24946
 
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| 6239 ||Caenorhabditis elegans ||17843
 
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|-
 
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| 83333 ||Escherichia coli K-12 ||16659
 
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|-
 
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| 192222 ||Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 ||11971
 
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|-
 
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| 10116 ||Rattus norvegicus ||11181
 
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|-
 
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| 4896 ||Schizosaccharomyces pombe ||9052
 
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|-
 
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| 381518 ||Influenza A virus (A/Wilson-Smith/1933(H1N1)) ||4087
 
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| 632 ||Yersinia pestis ||3956
 
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|}
 
  
 
== Interactions available from major taxonomies (corrected) ==
 
== Interactions available from major taxonomies (corrected) ==
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== Interactions ==
 
  
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{| cellspacing="0" cellpadding="5"
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== Summary of mapping interaction records to RIGs ==
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|  ||BHF_UCL ||BIND ||BIND_TRANSLATION ||BIOGRID ||CORUM ||DIP ||HPIDB ||HPRD ||I2D_IMEX ||INNATEDB ||INTACT ||INTCOMPLEX ||MATRIXDB ||MBINFO ||MOLCON ||MPACT ||MPIDB ||MPPI ||OPHID ||REACTOME ||SPIKE ||UNIPROTPP ||VIRUSHOST
 
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|-
 
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| BHF_UCL ||518 ||14 ||16 ||53 ||7 ||40 ||  ||28 ||3 ||10 ||508 ||3 ||  ||1 ||1 ||  ||  ||11 ||53 ||40 ||24 ||  ||2
 
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|-
 
−
| BIND ||  ||62858 ||49843 ||20700 ||171 ||24290 ||5 ||1554 ||18 ||141 ||24309 ||166 ||3 ||8 ||7 ||5914 ||8 ||285 ||1683 ||701 ||601 ||449 ||169
 
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|-
 
−
| BIND_TRANSLATION ||  ||  ||60720 ||23763 ||167 ||25459 ||7 ||2284 ||23 ||195 ||25328 ||121 ||3 ||9 ||9 ||5857 ||7 ||291 ||2407 ||858 ||767 ||454 ||194
 
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|-
 
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| BIOGRID ||  ||  ||  ||324083 ||155 ||29717 ||6 ||9705 ||51 ||729 ||58547 ||175 ||13 ||20 ||74 ||4236 ||  ||125 ||6833 ||5675 ||4452 ||1489 ||9406
 
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|-
 
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| CORUM ||  ||  ||  ||  ||2607 ||155 ||1 ||154 ||9 ||26 ||362 ||67 ||1 ||2 ||4 ||  ||  ||15 ||239 ||159 ||95 ||51 ||21
 
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|-
 
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| DIP ||  ||  ||  ||  ||  ||74638 ||4 ||553 ||25 ||225 ||29461 ||220 ||5 ||7 ||12 ||6314 ||62 ||58 ||1278 ||979 ||393 ||549 ||286
 
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|-
 
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| HPIDB ||  ||  ||  ||  ||  ||  ||725 ||3 ||  ||  ||722 ||  ||  ||  ||  ||  ||  ||  ||3 ||5 ||1 ||5 ||5
 
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|-
 
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| HPRD ||  ||  ||  ||  ||  ||  ||  ||40536 ||18 ||404 ||5515 ||31 ||23 ||15 ||14 ||  ||  ||107 ||7243 ||2186 ||3253 ||203 ||2746
 
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|-
 
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| I2D_IMEX ||  ||  ||  ||  ||  ||  ||  ||  ||434 ||10 ||433 ||5 ||  ||  ||2 ||  ||  ||6 ||58 ||40 ||29 ||4 ||2
 
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|-
 
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| INNATEDB ||  ||  ||  ||  ||  ||  ||  ||  ||  ||4932 ||658 ||11 ||3 ||2 ||4 ||  ||  ||19 ||639 ||466 ||255 ||52 ||53
 
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|-
 
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| INTACT ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||224568 ||446 ||74 ||329 ||211 ||6747 ||899 ||168 ||10253 ||2758 ||8344 ||5007 ||20720
 
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|-
 
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| INTCOMPLEX ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||968 ||  ||  ||1 ||113 ||7 ||7 ||75 ||77 ||20 ||60 ||7
 
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|-
 
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| MATRIXDB ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||324 ||  ||  ||  ||  ||2 ||32 ||51 ||7 ||1 ||
 
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|-
 
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| MBINFO ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||330 ||2 ||  ||  ||1 ||28 ||15 ||11 ||3 ||5
 
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|-
 
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| MOLCON ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||212 ||  ||  ||3 ||21 ||24 ||6 ||2 ||2
 
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|-
 
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| MPACT ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||13398 ||  ||  ||  ||  ||  ||232 ||
 
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|-
 
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| MPIDB ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||954 ||  ||  ||  ||  ||2 ||
 
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|-
 
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| MPPI ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||776 ||181 ||67 ||56 ||14 ||11
 
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|-
 
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| OPHID ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||47464 ||4504 ||6734 ||302 ||4313
 
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|-
 
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| REACTOME ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||141818 ||1231 ||247 ||423
 
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|-
 
−
| SPIKE ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||27824 ||151 ||3157
 
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|-
 
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| UNIPROTPP ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||5049 ||46
 
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|-
 
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| VIRUSHOST ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||45538
 
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|-
 
−
| (Exclusive to source) ||10 ||11047 ||5247 ||235454 ||1921 ||28293 ||2 ||24695 ||3144 ||124654 ||416 ||192 ||1 ||1 ||5396 ||53 ||227 ||27290 ||131031 ||15652 ||28 ||22752
 
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|}
 
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== Interactors ==
 
−
 
 
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{| cellspacing="0" cellpadding="5"
 
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|  ||BHF_UCL ||BIND ||BIND_TRANSLATION ||BIOGRID ||CORUM ||DIP ||HPIDB ||HPRD ||I2D_IMEX ||INNATEDB ||INTACT ||INTCOMPLEX ||MATRIXDB ||MBINFO ||MOLCON ||MPACT ||MPIDB ||MPPI ||OPHID ||REACTOME ||SPIKE ||UNIPROTPP ||VIRUSHOST
 
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|-
 
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| BHF_UCL ||494 ||209 ||221 ||283 ||175 ||236 ||44 ||206 ||44 ||143 ||494 ||33 ||18 ||14 ||29 ||  ||1 ||70 ||295 ||223 ||252 ||118 ||241
 
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|-
 
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| BIND ||  ||37441 ||29648 ||16135 ||1810 ||15796 ||260 ||2340 ||231 ||1209 ||19047 ||1334 ||80 ||111 ||125 ||4201 ||66 ||600 ||2702 ||1787 ||2321 ||2177 ||2303
 
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|-
 
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| BIND_TRANSLATION ||  ||  ||36124 ||17308 ||1835 ||16294 ||281 ||2806 ||248 ||1362 ||19714 ||1253 ||88 ||120 ||132 ||3878 ||66 ||605 ||3075 ||2017 ||2591 ||2153 ||2528
 
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|-
 
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| BIOGRID ||  ||  ||  ||51873 ||2582 ||15512 ||420 ||6413 ||269 ||2307 ||32383 ||1604 ||121 ||131 ||180 ||4550 ||9 ||499 ||5880 ||3362 ||5484 ||3080 ||6001
 
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|-
 
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| CORUM ||  ||  ||  ||  ||4363 ||1693 ||217 ||1542 ||216 ||1041 ||3780 ||318 ||59 ||82 ||146 ||  ||2 ||408 ||2248 ||1616 ||1931 ||1063 ||1980
 
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|-
 
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| DIP ||  ||  ||  ||  ||  ||25804 ||241 ||1772 ||244 ||1305 ||20766 ||1442 ||77 ||104 ||135 ||4421 ||250 ||412 ||2541 ||1744 ||2145 ||2225 ||2252
 
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|-
 
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| HPIDB ||  ||  ||  ||  ||  ||  ||782 ||309 ||44 ||227 ||782 ||25 ||22 ||19 ||27 ||1 ||1 ||60 ||492 ||280 ||416 ||184 ||591
 
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|-
 
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| HPRD ||  ||  ||  ||  ||  ||  ||  ||9841 ||188 ||1453 ||6115 ||238 ||97 ||55 ||119 ||  ||7 ||264 ||5148 ||2890 ||4497 ||1009 ||4291
 
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|-
 
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| I2D_IMEX ||  ||  ||  ||  ||  ||  ||  ||  ||448 ||171 ||448 ||46 ||17 ||14 ||56 ||  ||2 ||87 ||298 ||217 ||251 ||160 ||254
 
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|-
 
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| INNATEDB ||  ||  ||  ||  ||  ||  ||  ||  ||  ||3619 ||3247 ||153 ||73 ||53 ||95 ||  ||7 ||265 ||2169 ||1351 ||1823 ||674 ||1942
 
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|-
 
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| INTACT ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||73955 ||1982 ||191 ||273 ||275 ||4953 ||995 ||730 ||8287 ||4576 ||7192 ||4642 ||8991
 
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|-
 
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| INTCOMPLEX ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||2194 ||30 ||9 ||14 ||1039 ||37 ||65 ||319 ||332 ||265 ||550 ||266
 
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|-
 
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| MATRIXDB ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||231 ||7 ||7 ||  ||1 ||17 ||142 ||130 ||113 ||37 ||106
 
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|-
 
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| MBINFO ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||273 ||17 ||2 ||1 ||39 ||92 ||74 ||71 ||53 ||81
 
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|-
 
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| MOLCON ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||275 ||  ||  ||52 ||191 ||148 ||165 ||115 ||181
 
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|-
 
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| MPACT ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||4995 ||  ||  ||1 ||  ||  ||894 ||3
 
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|-
 
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| MPIDB ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||995 ||1 ||11 ||8 ||10 ||19 ||10
 
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|-
 
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| MPPI ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||833 ||418 ||315 ||342 ||256 ||326
 
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|-
 
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| OPHID ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||9476 ||3908 ||6024 ||1448 ||6078
 
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|-
 
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| REACTOME ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||6013 ||3097 ||964 ||3112
 
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|-
 
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| SPIKE ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||8811 ||1286 ||5403
 
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|-
 
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| UNIPROTPP ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||4642 ||1419
 
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|-
 
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| VIRUSHOST ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||  ||10283
 
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|-
 
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| (Exclusive to source) ||6190 ||3607 ||14983 ||315 ||2555 ||1792 ||109 ||27173 ||115 ||19 ||24 ||18 ||407 ||773 ||905 ||905
 
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|}
 
  
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== Summary of mapping interaction records to RIGs (Table 5) ==
+
'''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 in brackets.  '''Unique interactions''': Number of unique protein interactions and complexes (RIGID's) found in the data source (expressed as a percentage of column 4 in brackets).
  
 
{| cellspacing="0" cellpadding="5"
 
{| cellspacing="0" cellpadding="5"

Revision as of 13:17, 21 April 2015


These statistics apply to the extended version of iRefIndex. See the iRefIndex_Release_Notes for details.



Interactions available from major taxonomies (corrected)

NCBI taxonomy identifier Scientific name Number of interactions
9606 Homo sapiens 472494
559292 Saccharomyces cerevisiae S288c 122323
7227 Drosophila melanogaster 60888
10090 Mus musculus 35318
3702 Arabidopsis thaliana 24946
6239 Caenorhabditis elegans 17843
83333 Escherichia coli K-12 16450
192222 Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 11971
10116 Rattus norvegicus 9679
284812 Schizosaccharomyces pombe 972h- 9387
381518 Influenza A virus (A/Wilson-Smith/1933(H1N1)) 4087
632 Yersinia pestis 3956
243276 Treponema pallidum subsp. pallidum str. Nichols 3642
1111708 Synechocystis sp. PCC 6803 substr. Kazusa 3232


Summary of mapping interaction records to RIGs

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 in brackets. Unique interactions: Number of unique protein interactions and complexes (RIGID's) found in the data source (expressed as a percentage of column 4 in brackets).

Source Total records Protein-related interactions PPI assigned to RIGID % Unique RIGIDs %
BHF_UCL 928 915 915 100.00 518 56.61
BIND 157736 91309 90816 99.46 62858 69.21
BIND_TRANSLATION 192923 84138 81773 97.19 60720 74.25
BIOGRID 790004 493818 491294 99.49 324083 65.97
CORUM 2844 2844 2844 100.00 2607 91.67
DIP 78781 77225 77052 99.78 74638 96.87
HPIDB 1458 1405 1405 100.00 725 51.60
HPRD 83022 83022 82983 99.95 40536 48.85
I2D_IMEX 892 891 891 100.00 434 48.71
INNATEDB 17496 17496 7111 40.64 4932 69.36
INTACT 344906 327730 327637 99.97 224568 68.54
INTCOMPLEX 1100 982 982 100.00 968 98.57
MATRIXDB 596 575 575 100.00 324 56.35
MBINFO 542 521 521 100.00 330 63.34
MOLCON 377 375 375 100.00 212 56.53
MPACT 16504 16504 16373 99.21 13398 81.83
MPIDB 1505 1504 1504 100.00 954 63.43
MPPI 1814 1758 1578 89.76 776 49.18
OPHID 73257 73257 73257 100.00 47464 64.79
REACTOME 141996 141996 141993 100.00 141818 99.88
SPIKE 29686 29686 28323 95.41 27824 98.24
UNIPROTPP 8952 8890 8890 100.00 5049 56.79
VIRUSHOST 45540 45540 45539 100.00 45538 100.00
(All) 1992859 1502381 1484631 98.82 797994 53.75

Assignment of protein interactors to ROGs (Table 3)

Source Protein interactors Assigned % Arbitrary Matching sequence New or obsolete sequence Unassigned Unique proteins
BHF_UCL 2060 2060 100.00 0 0 0 0 494
BIND 252251 251706 99.78 0 0 0 545 37441
BIND_TRANSLATION 257681 251597 97.64 40883 0 0 6084 36124
BIOGRID 53047 52116 98.24 11433 0 0 931 51873
CORUM 12916 12916 100.00 7 0 0 0 4363
DIP 26633 26551 99.69 2084 0 0 82 25804
HPIDB 3221 3221 100.00 0 0 0 0 782
HPRD 123812 123812 100.00 13563 95615 130 0 9841
I2D_IMEX 1932 1932 100.00 0 0 0 0 448
INNATEDB 40104 24918 62.13 0 0 0 15186 3619
INTACT 265428 265292 99.95 115 39 74 136 73955
INTCOMPLEX 3256 3256 100.00 0 0 0 0 2194
MATRIXDB 1171 1171 100.00 5 0 0 0 231
MBINFO 1134 1134 100.00 0 0 0 0 273
MOLCON 862 862 100.00 0 0 0 0 275
MPACT 40349 40199 99.63 0 0 0 150 4995
MPIDB 3238 3238 100.00 0 0 0 0 995
MPPI 3568 3361 94.20 16 0 0 207 833
OPHID 146514 146514 100.00 405 20 1014 0 9476
REACTOME 283992 283988 100.00 19 0 0 4 6013
SPIKE 65934 64561 97.92 967 0 0 1373 8811
UNIPROTPP 21185 21185 100.00 1 0 0 0 4642
VIRUSHOST 94874 94873 100.00 22 0 0 1 10283
(All) 1705162 1680463 98.55 69520 95674 1218 24699 122677

ROG summary

BHF_UCL BIND BIND_TRANSLATION BIOGRID CORUM DIP HPIDB HPRD I2D_IMEX INNATEDB INTACT INTCOMPLEX MATRIXDB MBINFO MOLCON MPACT MPIDB MPPI OPHID REACTOME SPIKE UNIPROTPP VIRUSHOST
P 2060 173353 33822 12875 3221 1932 24918 264204 3256 1166 1134 862 3238 283963 55189 21180 94851
P+IN 6
P+L 19764 746 2 22
P+N 64
P+X 3 2
PD 116272 2996 124085
PD+IN 2
PD+LQ 10197
PD+N 1014
PD+X 10
PD+XQ 26
PDIQ 732
PDQ 30573
PGD 613 2079 306
PGD+L 6300 10659 6 962
PGD+X 13
PI 418
PT 2084 2579 1 30579
PT+L 541 1
PTD 84164 1 44 114
PTD+LQ 4022
PTDIQ 13
PTDQ 2492
PTGD 17 1
PTGD+L 21 2
PTI 16
PTM 3
PU 16 34 396 6 8099 4
PU+L 17 7 76 5 19 5
PU+O 23
PU+X 610 2
PUD 7 143 17341
PUD+L 13 265
PUD+O 20
PUD+X 60 162 3526
PUT 4 15 2527
PUT+L 21 30 1
PUT+O 16
PUTD 4 9
PUTD+L 3 140
PV 7
PV+L 1
S 146 831 12454 115 1
S+L 25 1560 634
S+N 2
S+O 275
S+X 263
SD 1338 4690 3119
SD+L 215 327
SD+N 130
SD+O 11114
SD+X 1173
SGD 680
SGD+L 2124
SGD+O 15462
SI 45114
ST 4557 112 7093
ST+L 243 3767
ST+O 852
STD 18 702 8455
STD+L 5 645
STD+O 28208
STGD 2023
STGD+L 6026
STGD+O 39571
STI 6075
SU 32
SUD 47
SUD+L 33 25
SUD+O 2
SUD+X 568
SUTD 13
SUTD+L 28 15
SUTD+O 131
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