PMN Database Content Statistics

Current PMN Release - April 2011

PlantCyc 5.0 AraCyc 8.0 PoplarCyc 3.0
Pathways (total) 810 446 343
Superpathways* 73 53 34
Base pathways* 737 393 309
-- Experimentally-supported (EV-EXP) 682 335 36
-- Hypothetical (EV-HYPO) 8 1 2
-- Predicted (EV-COMP) 28 38 205
-- with no enzymes 92 17 44
Enzymes** 11217 5520 3422
-- in reactions 10582 3203 2982
---- in reactions (EV-EXP) 2325 1187 8
---- in reactions in pathways 10265 2071 1842
------ in reactions (EV-EXP) in pathways 2235 973 7
Reactions 3167 2689 1906
-- with enzymes 2244 1831 1138
---- with enzymes (EV-EXP) 1931 1253 8
-- in pathways 2902 1616 1297
---- in pathways with enzymes 2163 1223 660
------ in pathways with enzymes (EV-EXP) 1872 965 8
Compounds 3146 2825 1406
Organisms (species and hybrids) 366 1 1***
Citations 5734 3346 1371

Previous PMN Releases

PMN Release - June 2010
  • PlantCyc 4.0
  • AraCyc 7.0
  • PoplarCyc 2.0

PMN Release - October 2009
  • PlantCyc 3.0
  • AraCyc 6.0
  • PoplarCyc 1.0

PMN Release - March 2009
PMN Release - June 2008
Previous AraCyc releases (with content statistics)
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PMN Release - June 2010

PlantCyc 4.0 AraCyc 7.0 PoplarCyc 2.0
Pathways (total) 762 423 323
Superpathways* 77 54 35
Base pathways* 685 369 288
-- Experimentally-supported (EV-EXP) 634 312 33
-- Hypothetical (EV-HYPO) 8 1 2
-- Predicted (EV-COMP) 29 40 203
-- with no enzymes 91 20 34
Enzymes** 11058 5506 3420
-- in reactions 10411 2926 2643
---- in reactions (EV-EXP) 2144 1062 4
---- in reactions in pathways 10206 2011 1818
------ in reactions (EV-EXP) in pathways 2076 891 3
Reactions 2929 2418 1707
-- with enzymes 2088 1700 1032
---- with enzymes (EV-EXP) 1757 1107 4
-- in pathways 2754 1560 1218
---- in pathways with enzymes 2020 1136 653
------ in pathways with enzymes (EV-EXP) 1721 876 3
Compounds 2966 2719 1397
Organisms (species and hybrids) 343 1 1***
Citations 5204 2907 1092
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PMN Release - October 2009

PlantCyc 3.0 AraCyc 6.0 PoplarCyc 1.0
Pathways (total) 714 408 321
Superpathways* 71 48 36
Base pathways* 643 360 285
-- Experimentally-supported (EV-EXP) 585 299 25
-- Hypothetical (EV-HYPO) 7 0 0
-- Predicted (EV-COMP) 31 41 215
-- with no enzymes 91 20 31
Enzymes** 10964 5501 3434
-- in reactions 10324 2897 2671
---- in reactions (EV-EXP) 2020 1040 2
---- in reactions in pathways 10156 2007 1807
------ in reactions (EV-EXP) in pathways 1974 858 1
Reactions 2709 2323 1668
-- with enzymes 1942 1669 1036
---- with enzymes (EV-EXP) 1621 1061 2
-- in pathways 2619 1510 1212
---- in pathways with enzymes 1928 1093 662
------ in pathways with enzymes (EV-EXP) 1614 829 2
Compounds 2679 2630 1363
Organisms (species and hybrids) 329 1 1***
Citations 4803 2691 903

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PlantCyc 2.0 (March 2009)

At the time of the PlantCyc 2.0 release (March 2009), the following data are present in the database:

  • Total number of pathways (excluding superpathways): 581
    • number of pathways with experimental evidence (EV-EXP): 516
    • number of hypothetical pathways (EV-AS-HYPO): 6
    • number of predicted pathways (EV-COMP): 35
    • number of pathways with enzyme data from multiple species: 361
    • number of pathways with no associated enzymes: 34

  • Total number of reactions: 2501
    • number of reactions associated with enzymes: 1756
    • number of reactions associated with enzymes based on experimental evidence: 1460

  • Total number of enzymes (monomers or proteins complexes catalyzing a reaction): 8558
    • number of enzymes with experimental evidence: 1925

  • Total number of compounds: 2464

  • Total number of organisms: 320
  • Total number of citations: 4971

Please see our archives for database content statistics for previous PlantCyc releases

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AraCyc 5.0 (March 2009)

Total number of pathways (excluding superpathways):
332
... with experimental evidence (EV-EXP or EV-AS):
290
... with no associated genes:
21
Total number of reactions:
1928
... associated with genes:
1270
... number of reactions associated with genes having experimental evidence:
925
... in pathways:
1388
... in pathways, associated with genes:
932
... in pathways, associated with genes having experimental evidence:
723
Total number of genes:
5821
... in pathways:
1970
... with experimental evidence, in pathways:
773
... in reactions:
2787
... with experimental evidence, in reactions:
952
Total number of proteins:
5869
Total number of protein complexes:
166
Total number of compounds:
2312
Total number of citations:
2543


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PlantCyc 1.0 (June 2008)

At the time of the PlantCyc 1.0 release (June 2008), the following data are present in the database:

  • Total number of pathways (excluding superpathways): 508
    • number of pathways with experimental evidence(EV-EXP): 449
    • number of hypothetical pathways (EV-AS-HYPO): 4
    • number of predicted pathways(EV-COMP): 32
    • number of pathways with enzyme data from multiple species: 151
    • number of pathways with no associated enzymes: 80

  • Total number of reactions: 2277
    • number of reactions associated with enzymes: 1584
    • number of reactions associated with enzymes based on experimental evidence: 1386

  • Total number of enzymes (monomers or proteins complexes catalyzing a reaction): 2954
    • number of enzymes with experimental evidence: 1726

  • Total number of compounds: 2314

  • Total number of organisms: 270
  • Total number of citations: 4208

Please see our archives for database content statistics for previous PlantCyc releases

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AraCyc 4.5 (June 2008)

Total number of pathways (excluding superpathways):
288
... with experimental evidence (EV-EXP or EV-AS):
258
... with no associated genes:
12
Total number of reactions:
1723
... associated with genes:
1220
... number of reactions associated with genes having experimental evidence:
879
... in pathways:
1279
... in pathways, associated with genes:
878
... in pathways, associated with genes having experimental evidence:
680
Total number of genes:
6158
... in pathways:
1914
... with experimental evidence, in pathways:
771
... in reactions:
2733
... with experimental evidence, in reactions:
922
Total number of proteins:
6214
Total number of protein complexes:
174
Total number of compounds:
1956
Total number of citations:
2279
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AraCyc 4.1 (November 2007)

Total number of pathways (excluding superpathways):
283
... with experimental evidence:
256
Total number of reactions:
1701
... associated with genes:
1194
... associated with genes + experimental evidence:
839
... in pathways:
1273
... in pathways, associated with genes:
859
... in pathways, associated with genes + experimental evidence:
662
Total number of genes:
5964
... in pathways:
1901
... with experimental evidence, in pathways:
733
... in reactions:
2694
... with experimental evidence, in reactions:
823
Total number of proteins:
6021
Total number of protein complexes:
172
Total number of compounds:
1908
Total number of citations:
2192
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AraCyc 4.0 (July 2007)

Total number of pathways (excluding superpathways):
285
... with experimental evidence:
230
Total number of reactions:
1701
... associated with genes:
1136
... in pathways:
1277
... in pathways, associated with genes:
807
... associated with genes + experimental evidence:
773
... in pathways, associated with genes + experimental evidence:
599
Total number of genes:
5956
... in pathways:
1879
... with experimental evidence, in pathways:
712
... in reactions:
2675
... with experimental evidence, in reactions:
815
Total number of proteins:
6011
Total number of protein complexes:
163
Total number of compounds:
1902

Notes:

* A base pathway is composed entirely of reactions. It does not contain any other base pathways in their entirety. A superpathway is composed of a base pathway plus at least one additional reaction or base pathway.

** The term "enzyme" refers to both monomers and complexes found in the databases.

*** The vast majority of the enzymes present in the database are from Populus trichocarpa but experimentally supported enzymes and pathways from other species or hybrids in the Populus genus can be included in PoplarCyc.


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