-
Notifications
You must be signed in to change notification settings - Fork 0
/
ido.owl
7522 lines (6422 loc) · 508 KB
/
ido.owl
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
532
533
534
535
536
537
538
539
540
541
542
543
544
545
546
547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
579
580
581
582
583
584
585
586
587
588
589
590
591
592
593
594
595
596
597
598
599
600
601
602
603
604
605
606
607
608
609
610
611
612
613
614
615
616
617
618
619
620
621
622
623
624
625
626
627
628
629
630
631
632
633
634
635
636
637
638
639
640
641
642
643
644
645
646
647
648
649
650
651
652
653
654
655
656
657
658
659
660
661
662
663
664
665
666
667
668
669
670
671
672
673
674
675
676
677
678
679
680
681
682
683
684
685
686
687
688
689
690
691
692
693
694
695
696
697
698
699
700
701
702
703
704
705
706
707
708
709
710
711
712
713
714
715
716
717
718
719
720
721
722
723
724
725
726
727
728
729
730
731
732
733
734
735
736
737
738
739
740
741
742
743
744
745
746
747
748
749
750
751
752
753
754
755
756
757
758
759
760
761
762
763
764
765
766
767
768
769
770
771
772
773
774
775
776
777
778
779
780
781
782
783
784
785
786
787
788
789
790
791
792
793
794
795
796
797
798
799
800
801
802
803
804
805
806
807
808
809
810
811
812
813
814
815
816
817
818
819
820
821
822
823
824
825
826
827
828
829
830
831
832
833
834
835
836
837
838
839
840
841
842
843
844
845
846
847
848
849
850
851
852
853
854
855
856
857
858
859
860
861
862
863
864
865
866
867
868
869
870
871
872
873
874
875
876
877
878
879
880
881
882
883
884
885
886
887
888
889
890
891
892
893
894
895
896
897
898
899
900
901
902
903
904
905
906
907
908
909
910
911
912
913
914
915
916
917
918
919
920
921
922
923
924
925
926
927
928
929
930
931
932
933
934
935
936
937
938
939
940
941
942
943
944
945
946
947
948
949
950
951
952
953
954
955
956
957
958
959
960
961
962
963
964
965
966
967
968
969
970
971
972
973
974
975
976
977
978
979
980
981
982
983
984
985
986
987
988
989
990
991
992
993
994
995
996
997
998
999
1000
@prefix : <http://purl.obolibrary.org/obo/ido.owl#> .
@prefix dc: <http://purl.org/dc/elements/1.1/> .
@prefix obo: <http://purl.obolibrary.org/obo/> .
@prefix owl: <http://www.w3.org/2002/07/owl#> .
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix xml: <http://www.w3.org/XML/1998/namespace> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix foaf: <http://xmlns.com/foaf/0.1/> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix protege: <http://protege.stanford.edu/plugins/owl/protege#> .
@prefix oboInOwl: <http://www.geneontology.org/formats/oboInOwl#> .
@base <http://purl.obolibrary.org/obo/ido.owl> .
<http://purl.obolibrary.org/obo/ido.owl> rdf:type owl:Ontology ;
owl:versionIRI <http://purl.obolibrary.org/obo/2020-3-08/ido.owl> ;
protege:defaultLanguage "en" ;
dc:contributor "Gustavo Carvalho" ,
"Regina Hurley" ,
"Sebastian Deusing" ,
"Shane Babcock" ;
dc:creator "Barry Smith" ,
"John Beverley" ;
dc:license <http://creativecommons.org/licenses/by/3.0/> ;
rdfs:comment "The COVID-19 Infectious Disease Ontology (IDO-COVID-19) is an extension of the Infectious Disease Ontology (IDO) and the Virus Infectious Disease Ontology (VIDO). IDO Virus follows OBO Foundry guidelines, employs the Basic Formal Ontology as its starting point, and covers epidemiology, classification, pathogenesis, and treatment of terms used to represent infection by the SARS-CoV-2 virus strain, and the associated COVID-19 disease. Other terms are defined as cross-products of terms from Foundry ontologies to the extent possible."@en .
#################################################################
# Annotation properties
#################################################################
### http://protege.stanford.edu/plugins/owl/protege#defaultLanguage
protege:defaultLanguage rdf:type owl:AnnotationProperty .
### http://purl.obolibrary.org/obo/BFO_0000179
obo:BFO_0000179 rdf:type owl:AnnotationProperty ;
obo:IAO_0000115 "Relates an entity in the ontology to the name of the variable that is used to represent it in the code that generates the BFO OWL file from the lispy specification."@en ;
obo:IAO_0000232 "Really of interest to developers only"@en ;
rdfs:label "BFO OWL specification label"@en ;
rdfs:subPropertyOf rdfs:label .
### http://purl.obolibrary.org/obo/BFO_0000180
obo:BFO_0000180 rdf:type owl:AnnotationProperty ;
obo:IAO_0000115 "Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2"@en ;
obo:IAO_0000119 "Person:Alan Ruttenberg" ;
obo:IAO_0000232 "Really of interest to developers only"@en ;
rdfs:label "BFO CLIF specification label"@en ;
rdfs:subPropertyOf rdfs:label .
### http://purl.obolibrary.org/obo/IAO_0000111
obo:IAO_0000111 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "editor preferred term"@en ;
obo:IAO_0000114 obo:IAO_0000122 ;
obo:IAO_0000115 "The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English)"@en ;
obo:IAO_0000117 "PERSON:Daniel Schober"@en ;
obo:IAO_0000119 "GROUP:OBI:<http://purl.obolibrary.org/obo/obi>"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "editor preferred term"@en .
### http://purl.obolibrary.org/obo/IAO_0000112
obo:IAO_0000112 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "example"@en ;
obo:IAO_0000114 obo:IAO_0000122 ;
obo:IAO_0000115 "A phrase describing how a term should be used and/or a citation to a work which uses it. May also include other kinds of examples that facilitate immediate understanding, such as widely know prototypes or instances of a class, or cases where a relation is said to hold."@en ;
obo:IAO_0000117 "PERSON:Daniel Schober"@en ;
obo:IAO_0000119 "GROUP:OBI:<http://purl.obolibrary.org/obo/obi>"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "example of usage"@en .
### http://purl.obolibrary.org/obo/IAO_0000113
obo:IAO_0000113 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "in branch"@en ;
obo:IAO_0000115 "An annotation property indicating which module the terms belong to. This is currently experimental and not implemented yet."@en ;
obo:IAO_0000117 "GROUP:OBI"@en ;
obo:IAO_0000119 "OBI_0000277"@en ;
rdfs:label "in branch"@en .
### http://purl.obolibrary.org/obo/IAO_0000114
obo:IAO_0000114 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "has curation status"@en ;
obo:IAO_0000117 "PERSON:Alan Ruttenberg"@en ,
"PERSON:Bill Bug"@en ,
"PERSON:Melanie Courtot"@en ;
obo:IAO_0000119 "OBI_0000281"@en ;
rdfs:label "has curation status"@en .
### http://purl.obolibrary.org/obo/IAO_0000115
obo:IAO_0000115 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "definition"@en ;
obo:IAO_0000114 obo:IAO_0000122 ;
obo:IAO_0000115 "The official OBI definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions."@en ,
"The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions."@en ;
obo:IAO_0000116 """2012-04-05:
Barry Smith
The official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible.
Can you fix to something like:
A statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property.
Alan Ruttenberg
Your proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria.
On the specifics of the proposed definition:
We don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition.
Personally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable.
We also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with. """@en ;
obo:IAO_0000117 "PERSON:Daniel Schober"@en ;
obo:IAO_0000119 "GROUP:OBI:<http://purl.obolibrary.org/obo/obi>"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "definition" ,
"definition"@en ,
"textual definition" .
### http://purl.obolibrary.org/obo/IAO_0000116
obo:IAO_0000116 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "editor note"@en ;
obo:IAO_0000114 obo:IAO_0000122 ;
obo:IAO_0000115 "An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology."@en ;
obo:IAO_0000117 "PERSON:Daniel Schober"@en ;
obo:IAO_0000119 "GROUP:OBI:<http://purl.obfoundry.org/obo/obi>"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "editor note"@en .
### http://purl.obolibrary.org/obo/IAO_0000117
obo:IAO_0000117 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "term editor"@en ;
obo:IAO_0000114 obo:IAO_0000122 ;
obo:IAO_0000115 "Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people"@en ;
obo:IAO_0000116 "20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115."@en ;
obo:IAO_0000117 "PERSON:Daniel Schober"@en ;
obo:IAO_0000119 "GROUP:OBI:<http://purl.obolibrary.org/obo/obi>"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "term editor"@en .
### http://purl.obolibrary.org/obo/IAO_0000118
obo:IAO_0000118 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "alternative term"@en ;
obo:IAO_0000114 obo:IAO_0000125 ;
obo:IAO_0000115 "An alternative name for a class or property which means the same thing as the preferred name (semantically equivalent)"@en ;
obo:IAO_0000117 "PERSON:Daniel Schober"@en ;
obo:IAO_0000119 "GROUP:OBI:<http://purl.obolibrary.org/obo/obi>"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "alternative term"@en .
### http://purl.obolibrary.org/obo/IAO_0000119
obo:IAO_0000119 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "definition source"@en ;
obo:IAO_0000114 obo:IAO_0000122 ;
obo:IAO_0000115 "formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007"@en ;
obo:IAO_0000117 "PERSON:Daniel Schober"@en ;
obo:IAO_0000119 "Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w"^^xsd:string ,
"GROUP:OBI:<http://purl.obolibrary.org/obo/obi>"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "definition source"@en .
### http://purl.obolibrary.org/obo/IAO_0000231
obo:IAO_0000231 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "has obsolescence reason"@en ;
obo:IAO_0000115 "Relates an annotation property to an obsolescence reason. The values of obsolescence reasons come from a list of predefined terms, instances of the class obsolescence reason specification."@en ;
obo:IAO_0000117 "PERSON:Alan Ruttenberg"@en ,
"PERSON:Melanie Courtot"@en ;
rdfs:label "has obsolescence reason"@en .
### http://purl.obolibrary.org/obo/IAO_0000232
obo:IAO_0000232 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "curator note"@en ;
obo:IAO_0000114 obo:IAO_0000122 ;
obo:IAO_0000115 "An administrative note of use for a curator but of no use for a user"@en ;
obo:IAO_0000117 "PERSON:Alan Ruttenberg"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "curator note"@en .
### http://purl.obolibrary.org/obo/IAO_0000233
obo:IAO_0000233 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "term tracker item" ;
obo:IAO_0000112 "the URI for an OBI Terms ticket at sourceforge, such as https://sourceforge.net/p/obi/obi-terms/772/" ;
obo:IAO_0000114 obo:IAO_0000125 ;
obo:IAO_0000115 "An IRI or similar locator for a request or discussion of an ontology term." ;
obo:IAO_0000117 "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" ;
obo:IAO_0000119 "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" ;
rdfs:comment "The 'tracker item' can associate a tracker with a specific ontology term." ;
rdfs:label "term tracker item"@en .
### http://purl.obolibrary.org/obo/IAO_0000234
obo:IAO_0000234 rdf:type owl:AnnotationProperty ;
obo:IAO_0000114 obo:IAO_0000125 ;
obo:IAO_0000115 "The name of the person, project, or organization that motivated inclusion of an ontology term by requesting its addition." ;
obo:IAO_0000117 "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" ;
obo:IAO_0000119 "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" ;
rdfs:comment "The 'term requester' can credit the person, organization or project who request the ontology term." ;
rdfs:label "ontology term requester"@en .
### http://purl.obolibrary.org/obo/IAO_0000411
obo:IAO_0000411 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "is denotator type"@en ;
obo:IAO_0000115 "relates an class defined in an ontology, to the type of it's denotator"^^xsd:string ;
obo:IAO_0000116 "In OWL 2 add AnnotationPropertyRange('is denotator type' 'denotator type')"^^xsd:string ;
obo:IAO_0000117 "Alan Ruttenberg"^^xsd:string ;
rdfs:label "is denotator type"^^xsd:string .
### http://purl.obolibrary.org/obo/IAO_0000412
obo:IAO_0000412 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "imported from"@en ;
obo:IAO_0000114 obo:IAO_0000125 ;
obo:IAO_0000115 "For external terms/classes, the ontology from which the term was imported"@en ;
obo:IAO_0000117 "PERSON:Alan Ruttenberg"@en ,
"PERSON:Melanie Courtot"@en ;
obo:IAO_0000119 "GROUP:OBI:<http://purl.obolibrary.org/obo/obi>"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "imported from"@en .
### http://purl.obolibrary.org/obo/IAO_0000424
obo:IAO_0000424 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "expand expression to"@en ;
obo:IAO_0000112 """ObjectProperty: RO_0002104
Label: has plasma membrane part
Annotations: IAO_0000424 \"http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.org/obo/owl/GO#GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)\"
"""@en ;
obo:IAO_0000115 "A macro expansion tag applied to an object property (or possibly a data property) which can be used by a macro-expansion engine to generate more complex expressions from simpler ones"@en ;
obo:IAO_0000117 "Chris Mungall"^^xsd:string ;
rdfs:label "expand expression to"@en .
### http://purl.obolibrary.org/obo/IAO_0000425
obo:IAO_0000425 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "expand assertion to"@en ;
obo:IAO_0000112 """ObjectProperty: RO???
Label: spatially disjoint from
Annotations: expand_assertion_to \"DisjointClasses: (http://purl.obolibrary.org/obo/BFO_0000051 some ?X) (http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)\"
"""@en ;
obo:IAO_0000115 "A macro expansion tag applied to an annotation property which can be expanded into a more detailed axiom."@en ;
obo:IAO_0000117 "Chris Mungall"@en ;
rdfs:label "expand assertion to"@en .
### http://purl.obolibrary.org/obo/IAO_0000426
obo:IAO_0000426 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "first order logic expression"@en ;
obo:IAO_0000117 "PERSON:Alan Ruttenberg"@en ;
rdfs:label "first order logic expression"@en .
### http://purl.obolibrary.org/obo/IAO_0000427
obo:IAO_0000427 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "antisymmetric property"@en ;
obo:IAO_0000112 "part_of antisymmetric property xsd:true"@en ;
obo:IAO_0000115 "use boolean value xsd:true to indicate that the property is an antisymmetric property"@en ;
obo:IAO_0000117 "Alan Ruttenberg"@en ;
rdfs:label "antisymmetric property"@en .
### http://purl.obolibrary.org/obo/IAO_0000589
obo:IAO_0000589 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "OBO foundry unique label"@en ;
obo:IAO_0000114 obo:IAO_0000125 ;
obo:IAO_0000115 "An alternative name for a class or property which is unique across the OBO Foundry."@en ;
obo:IAO_0000116 "The intended usage of that property is as follow: OBO foundry unique labels are automatically generated based on regular expressions provided by each ontology, so that SO could specify unique label = 'sequence ' + [label], etc. , MA could specify 'mouse + [label]' etc. Upon importing terms, ontology developers can choose to use the 'OBO foundry unique label' for an imported term or not. The same applies to tools ."^^xsd:string ;
obo:IAO_0000117 "PERSON:Alan Ruttenberg"@en ,
"PERSON:Bjoern Peters"@en ,
"PERSON:Chris Mungall"@en ,
"PERSON:Melanie Courtot"@en ;
obo:IAO_0000119 "GROUP:OBO Foundry <http://obofoundry.org/>"@en ;
rdfs:label "OBO foundry unique label"@en .
### http://purl.obolibrary.org/obo/IAO_0000596
obo:IAO_0000596 rdf:type owl:AnnotationProperty ;
obo:IAO_0000112 """Ontology: <http://purl.obolibrary.org/obo/ro/idrange/>
Annotations:
'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"
'has ID digit count' : 7,
rdfs:label \"RO id policy\"
'has ID policy for': \"RO\"""" ;
obo:IAO_0000115 "Relates an ontology used to record id policy to the number of digits in the URI. The URI is: the 'has ID prefix\" annotation property value concatenated with an integer in the id range (left padded with \"0\"s to make this many digits)" ;
obo:IAO_0000117 "Person:Alan Ruttenberg" ;
rdfs:label "has ID digit count"@en .
### http://purl.obolibrary.org/obo/IAO_0000597
obo:IAO_0000597 rdf:type owl:AnnotationProperty ;
obo:IAO_0000112 """Datatype: idrange:1
Annotations: 'has ID range allocated to': \"Chris Mungall\"
EquivalentTo: xsd:integer[> 2151 , <= 2300]
""" ;
obo:IAO_0000115 "Relates a datatype that encodes a range of integers to the name of the person or organization who can use those ids constructed in that range to define new terms" ;
obo:IAO_0000117 "Person:Alan Ruttenberg" ;
rdfs:label "has ID range allocated to"@en .
### http://purl.obolibrary.org/obo/IAO_0000598
obo:IAO_0000598 rdf:type owl:AnnotationProperty ;
obo:IAO_0000112 """Ontology: <http://purl.obolibrary.org/obo/ro/idrange/>
Annotations:
'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"
'has ID digit count' : 7,
rdfs:label \"RO id policy\"
'has ID policy for': \"RO\"""" ;
obo:IAO_0000115 "Relating an ontology used to record id policy to the ontology namespace whose policy it manages" ;
obo:IAO_0000117 "Person:Alan Ruttenberg" ;
rdfs:label "has ID policy for" .
### http://purl.obolibrary.org/obo/IAO_0000599
obo:IAO_0000599 rdf:type owl:AnnotationProperty ;
obo:IAO_0000112 """Ontology: <http://purl.obolibrary.org/obo/ro/idrange/>
Annotations:
'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"
'has ID digit count' : 7,
rdfs:label \"RO id policy\"
'has ID policy for': \"RO\"""" ;
obo:IAO_0000115 "Relates an ontology used to record id policy to a prefix concatenated with an integer in the id range (left padded with \"0\"s to make this many digits) to construct an ID for a term being created." ;
obo:IAO_0000117 "Person:Alan Ruttenberg" ;
rdfs:label "has ID prefix"@en .
### http://purl.obolibrary.org/obo/IAO_0000600
obo:IAO_0000600 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "elucidation"@en ;
obo:IAO_0000117 "person:Alan Ruttenberg"@en ;
obo:IAO_0000119 "Person:Barry Smith"@en ;
obo:IAO_0000600 "Primitive terms in a highest-level ontology such as BFO are terms which are so basic to our understanding of reality that there is no way of defining them in a non-circular fashion. For these, therefore, we can provide only elucidations, supplemented by examples and by axioms"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "elucidation"@en .
### http://purl.obolibrary.org/obo/IAO_0000601
obo:IAO_0000601 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "has associated axiom(nl)"@en ;
obo:IAO_0000117 "Person:Alan Ruttenberg"@en ;
obo:IAO_0000119 "Person:Alan Ruttenberg"@en ;
obo:IAO_0000600 "An axiom associated with a term expressed using natural language"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "has associated axiom(nl)"@en .
### http://purl.obolibrary.org/obo/IAO_0000602
obo:IAO_0000602 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "has associated axiom(fol)"@en ;
obo:IAO_0000117 "Person:Alan Ruttenberg"@en ;
obo:IAO_0000119 "Person:Alan Ruttenberg"@en ;
obo:IAO_0000600 "An axiom expressed in first order logic using CLIF syntax"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "has associated axiom(fol)"@en .
### http://purl.obolibrary.org/obo/IAO_0000603
obo:IAO_0000603 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "is allocated id range"@en ;
obo:IAO_0000115 "Add as annotation triples in the granting ontology"@en ,
"Relates an ontology IRI to an (inclusive) range of IRIs in an OBO name space. The range is give as, e.g. \"IAO_0020000-IAO_0020999\""@en ;
obo:IAO_0000117 "PERSON:Alan Ruttenberg"@en ;
rdfs:label "is allocated id range"@en .
### http://purl.obolibrary.org/obo/IAO_0010000
obo:IAO_0010000 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "has axiom id"@en ;
obo:IAO_0000117 "Person:Alan Ruttenberg"@en ;
obo:IAO_0000119 "Person:Alan Ruttenberg"@en ;
obo:IAO_0000600 "A URI that is intended to be unique label for an axiom used for tracking change to the ontology. For an axiom expressed in different languages, each expression is given the same URI"@en ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "has axiom label"@en .
### http://purl.obolibrary.org/obo/IAO_0100001
obo:IAO_0100001 rdf:type owl:AnnotationProperty ;
obo:IAO_0000111 "term replaced by"@en ;
obo:IAO_0000114 obo:IAO_0000125 ;
obo:IAO_0000115 "Add as annotation triples in the granting ontology"@en ,
"Use on obsolete terms, relating the term to another term that can be used as a substitute"@en ;
obo:IAO_0000117 "Person:Alan Ruttenberg"@en ;
obo:IAO_0000119 "Person:Alan Ruttenberg"@en ;
rdfs:label "term replaced by"@en .
### http://purl.obolibrary.org/obo/RO_0001900
obo:RO_0001900 rdf:type owl:AnnotationProperty ;
rdfs:label "temporal interpretation"@en ;
foaf:page "https://github.com/oborel/obo-relations/wiki/ROAndTime"^^xsd:anyURI .
### http://purl.org/dc/elements/1.1/contributor
dc:contributor rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/coverage
dc:coverage rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/creator
dc:creator rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/date
dc:date rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/description
dc:description rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/format
dc:format rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/identifier
dc:identifier rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/language
dc:language rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/license
dc:license rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/member
dc:member rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/publisher
dc:publisher rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/relation
dc:relation rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/rights
dc:rights rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/source
dc:source rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/subject
dc:subject rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/title
dc:title rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/type
dc:type rdf:type owl:AnnotationProperty .
### http://www.geneontology.org/formats/oboInOwl#hasAlternativeId
oboInOwl:hasAlternativeId rdf:type owl:AnnotationProperty .
### http://www.geneontology.org/formats/oboInOwl#hasDbXref
oboInOwl:hasDbXref rdf:type owl:AnnotationProperty .
### http://www.geneontology.org/formats/oboInOwl#hasDefinition
oboInOwl:hasDefinition rdf:type owl:AnnotationProperty .
### http://www.geneontology.org/formats/oboInOwl#hasExactSynonym
oboInOwl:hasExactSynonym rdf:type owl:AnnotationProperty .
### http://www.geneontology.org/formats/oboInOwl#hasOBONamespace
oboInOwl:hasOBONamespace rdf:type owl:AnnotationProperty .
### http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym
oboInOwl:hasRelatedSynonym rdf:type owl:AnnotationProperty .
### http://www.geneontology.org/formats/oboInOwl#hasURI
oboInOwl:hasURI rdf:type owl:AnnotationProperty .
### http://www.geneontology.org/formats/oboInOwl#inSubset
oboInOwl:inSubset rdf:type owl:AnnotationProperty .
### http://www.geneontology.org/formats/oboInOwl#shorthand
oboInOwl:shorthand rdf:type owl:AnnotationProperty ;
rdfs:label "shorthand"^^xsd:string .
### http://www.geneontology.org/formats/oboInOwl#term_editor
oboInOwl:term_editor rdf:type owl:AnnotationProperty .
### http://www.w3.org/2000/01/rdf-schema#comment
rdfs:comment rdf:type owl:AnnotationProperty .
### http://www.w3.org/2000/01/rdf-schema#isDefinedBy
rdfs:isDefinedBy rdf:type owl:AnnotationProperty .
### http://www.w3.org/2000/01/rdf-schema#label
rdfs:label rdf:type owl:AnnotationProperty ;
rdfs:label "label" .
### http://www.w3.org/2000/01/rdf-schema#seeAlso
rdfs:seeAlso rdf:type owl:AnnotationProperty .
### http://xmlns.com/foaf/0.1/homepage
foaf:homepage rdf:type owl:AnnotationProperty .
### http://xmlns.com/foaf/0.1/page
foaf:page rdf:type owl:AnnotationProperty .
#################################################################
# Object Properties
#################################################################
### http://purl.obolibrary.org/obo/BFO_0000050
obo:BFO_0000050 rdf:type owl:ObjectProperty ;
owl:inverseOf obo:BFO_0000051 ;
rdf:type owl:TransitiveProperty ;
obo:IAO_0000111 "is part of"@en ;
obo:IAO_0000112 "my brain is part of my body (continuant parthood, two material entities)"@en ,
"my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)"@en ,
"this day is part of this year (occurrent parthood)"@en ;
obo:IAO_0000115 "a core relation that holds between a part and its whole"@en ;
obo:IAO_0000116 "Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other."@en ,
"Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime"@en ,
"""Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)
A continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'."""@en ;
obo:IAO_0000118 "part_of"@en ;
obo:RO_0001900 obo:RO_0001901 ;
rdfs:label "part of"@en ;
rdfs:seeAlso "http://www.obofoundry.org/ro/#OBO_REL:part_of" .
### http://purl.obolibrary.org/obo/BFO_0000051
obo:BFO_0000051 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf owl:topObjectProperty ;
rdf:type owl:TransitiveProperty ;
obo:IAO_0000111 "has part"@en ;
obo:IAO_0000112 "my body has part my brain (continuant parthood, two material entities)"@en ,
"my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)"@en ,
"this year has part this day (occurrent parthood)"@en ;
obo:IAO_0000115 "a core relation that holds between a whole and its part"@en ;
obo:IAO_0000116 "Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part."@en ,
"Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime"@en ,
"""Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.)
A continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'."""@en ;
obo:IAO_0000118 "has_part"@en ;
obo:RO_0001900 obo:RO_0001901 ;
rdfs:label "has part"@en .
### http://purl.obolibrary.org/obo/BFO_0000054
obo:BFO_0000054 rdf:type owl:ObjectProperty ;
owl:inverseOf obo:BFO_0000055 ;
rdf:type owl:AsymmetricProperty ,
owl:IrreflexiveProperty ;
rdfs:domain obo:BFO_0000017 ;
rdfs:range obo:BFO_0000015 ;
obo:IAO_0000111 "realized in"@en ;
obo:IAO_0000112 "this disease is realized in this disease course"@en ,
"this fragility is realized in this shattering"@en ,
"this investigator role is realized in this investigation"@en ;
obo:IAO_0000118 "is realized by"@en ,
"realized_in"@en ;
obo:IAO_0000600 "[copied from inverse property 'realizes'] to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])"@en ;
rdfs:comment "Paraphrase of elucidation: a relation between a realizable entity and a process, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process" ;
rdfs:isDefinedBy obo:bfo.owl ;
rdfs:label "realized in"@en .
### http://purl.obolibrary.org/obo/BFO_0000055
obo:BFO_0000055 rdf:type owl:ObjectProperty ,
owl:AsymmetricProperty ,
owl:IrreflexiveProperty ;
rdfs:domain obo:BFO_0000015 ;
rdfs:range obo:BFO_0000017 ;
obo:IAO_0000111 "realizes"@en ;
obo:IAO_0000112 "this disease course realizes this disease"@en ,
"this investigation realizes this investigator role"@en ,
"this shattering realizes this fragility"@en ;
obo:IAO_0000600 "to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])"@en ;
rdfs:comment "Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process" ;
rdfs:isDefinedBy obo:iao.owl ;
rdfs:label "realizes"@en .
### http://purl.obolibrary.org/obo/BFO_0000062
obo:BFO_0000062 rdf:type owl:ObjectProperty ;
owl:inverseOf obo:BFO_0000063 ;
rdf:type owl:TransitiveProperty ;
rdfs:domain obo:BFO_0000003 ;
rdfs:range obo:BFO_0000003 ;
obo:IAO_0000111 "preceded by"@en ;
obo:IAO_0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other."@en ;
obo:IAO_0000118 "is preceded by"@en ,
"preceded_by"@en ;
dc:source "http://www.obofoundry.org/ro/#OBO_REL:preceded_by" ;
rdfs:label "preceded by"@en .
### http://purl.obolibrary.org/obo/BFO_0000063
obo:BFO_0000063 rdf:type owl:ObjectProperty ,
owl:TransitiveProperty ;
rdfs:domain obo:BFO_0000003 ;
rdfs:range obo:BFO_0000003 ;
obo:IAO_0000111 "precedes"@en ;
rdfs:label "precedes"@en .
### http://purl.obolibrary.org/obo/BFO_0000066
obo:BFO_0000066 rdf:type owl:ObjectProperty ;
owl:inverseOf obo:BFO_0000067 ;
rdfs:domain obo:BFO_0000003 ;
rdfs:range obo:BFO_0000004 ;
owl:propertyChainAxiom ( obo:BFO_0000050
obo:BFO_0000066
) ,
( obo:BFO_0000066
obo:BFO_0000050
) ;
obo:IAO_0000111 "occurs in"@en ;
obo:IAO_0000115 "b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t"@en ;
obo:IAO_0000118 "occurs_in"@en ,
"unfolds in"@en ,
"unfolds_in"@en ;
rdfs:comment "Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant" ;
rdfs:isDefinedBy obo:bfo.owl ;
rdfs:label "occurs in"@en .
### http://purl.obolibrary.org/obo/BFO_0000067
obo:BFO_0000067 rdf:type owl:ObjectProperty ;
obo:IAO_0000111 "site of"@en ;
obo:IAO_0000115 "[copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t"@en ;
rdfs:comment "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ;
rdfs:isDefinedBy obo:bfo.owl ;
rdfs:label "contains process"@en .
### http://purl.obolibrary.org/obo/BFO_999999
obo:BFO_999999 rdf:type owl:ObjectProperty ;
rdfs:domain obo:BFO_0000003 ;
rdfs:range obo:BFO_0000008 ;
oboInOwl:term_editor "John Beverley"^^xsd:string ;
rdfs:comment "Not sure if this has an IRI yet, so I supplied a placeholder." ;
rdfs:label "occupies temporal region"@en .
### http://purl.obolibrary.org/obo/IDO_0000660
obo:IDO_0000660 rdf:type owl:ObjectProperty ;
rdfs:label "results in"@en .
### http://purl.obolibrary.org/obo/IDO_0000664
obo:IDO_0000664 rdf:type owl:ObjectProperty ;
rdfs:range obo:BFO_0000040 ;
rdfs:label "has_material_basis_in" .
### http://purl.obolibrary.org/obo/OBI_0000293
obo:OBI_0000293 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000057 ;
owl:inverseOf obo:OBI_0000295 ;
obo:IAO_0000412 "http://purl.obolibrary.org/obo/obi.owl" ;
rdfs:label "has specified input"@en .
### http://purl.obolibrary.org/obo/OBI_0000295
obo:OBI_0000295 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000056 ;
obo:IAO_0000115 "Participates in relation between a planned process and a continuant participating in that process that is not created during the process, where the presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of." ;
obo:IAO_0000412 "http://purl.obolibrary.org/obo/obi.owl" ;
rdfs:label "is specified input of"@en .
### http://purl.obolibrary.org/obo/OBI_0000299
obo:OBI_0000299 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000057 ;
owl:inverseOf obo:OBI_0000312 ;
obo:IAO_0000412 "http://purl.obolibrary.org/obo/obi.owl" ;
rdfs:label "has specified output"@en .
### http://purl.obolibrary.org/obo/OBI_0000312
obo:OBI_0000312 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000056 ;
rdfs:domain obo:BFO_0000002 ;
rdfs:range obo:OBI_0000011 ;
obo:IAO_0000115 "Participates in relation between a planned process and a continuant participating in that process where the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of." ;
obo:IAO_0000412 "http://purl.obolibrary.org/obo/obi.owl" ;
rdfs:label "is specified output of"@en .
### http://purl.obolibrary.org/obo/RO_0000052
obo:RO_0000052 rdf:type owl:ObjectProperty ;
owl:inverseOf obo:RO_0000053 ;
obo:IAO_0000111 "inheres in"@en ;
obo:IAO_0000112 "this fragility inheres in this vase"@en ,
"this red color inheres in this apple"@en ;
obo:IAO_0000115 "a relation between a specifically dependent continuant (the dependent) and an independent continuant (the bearer), in which the dependent specifically depends on the bearer for its existence"@en ;
obo:IAO_0000116 "A dependent inheres in its bearer at all times for which the dependent exists."@en ;
obo:IAO_0000118 "inheres_in"@en ;
obo:RO_0001900 obo:RO_0001901 ;
rdfs:label "inheres in"@en .
### http://purl.obolibrary.org/obo/RO_0000053
obo:RO_0000053 rdf:type owl:ObjectProperty ;
rdfs:range obo:BFO_0000020 ;
obo:IAO_0000111 "bearer of"@en ;
obo:IAO_0000112 "this apple is bearer of this red color"@en ,
"this vase is bearer of this fragility"@en ;
obo:IAO_0000115 "a relation between an independent continuant (the bearer) and a specifically dependent continuant (the dependent), in which the dependent specifically depends on the bearer for its existence"@en ;
obo:IAO_0000116 "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist."@en ;
obo:IAO_0000118 "bearer_of"@en ,
"is bearer of"@en ;
obo:RO_0001900 obo:RO_0001901 ;
rdfs:label "bearer of"@en .
### http://purl.obolibrary.org/obo/RO_0000056
obo:RO_0000056 rdf:type owl:ObjectProperty ;
owl:inverseOf obo:RO_0000057 ;
rdf:type owl:AsymmetricProperty ,
owl:IrreflexiveProperty ;
rdfs:domain obo:BFO_0000002 ;
rdfs:range obo:BFO_0000003 ;
obo:IAO_0000111 "participates in"@en ;
obo:IAO_0000112 "this blood clot participates in this blood coagulation"@en ,
"this input material (or this output material) participates in this process"@en ,
"this investigator participates in this investigation"@en ;
obo:IAO_0000115 "a relation between a continuant and a process, in which the continuant is somehow involved in the process"@en ;
obo:IAO_0000118 "participates_in"@en ;
rdfs:label "participates in"@en .
### http://purl.obolibrary.org/obo/RO_0000057
obo:RO_0000057 rdf:type owl:ObjectProperty ,
owl:AsymmetricProperty ,
owl:IrreflexiveProperty ;
rdfs:domain obo:BFO_0000003 ;
rdfs:range obo:BFO_0000002 ;
obo:IAO_0000111 "has participant"@en ;
obo:IAO_0000112 "this blood coagulation has participant this blood clot"@en ,
"this investigation has participant this investigator"@en ,
"this process has participant this input material (or this output material)"@en ;
obo:IAO_0000115 "a relation between a process and a continuant, in which the continuant is somehow involved in the process"@en ;
obo:IAO_0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time."@en ;
obo:IAO_0000118 "has_participant"@en ;
dc:source "http://www.obofoundry.org/ro/#OBO_REL:has_participant" ;
rdfs:label "has participant"@en .
### http://purl.obolibrary.org/obo/RO_0000058
obo:RO_0000058 rdf:type owl:ObjectProperty ;
owl:inverseOf obo:RO_0000059 ;
rdf:type owl:AsymmetricProperty ,
owl:IrreflexiveProperty ;
rdfs:domain obo:BFO_0000031 ;
rdfs:range obo:BFO_0000020 ;
obo:IAO_0000112 "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The journal article (a generically dependent continuant) is concretized as the quality (a specifically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)."@en ,
"An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)."@en ;
obo:IAO_0000115 "A relationship between a generically dependent continuant and a specifically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. A generically dependent continuant may be concretized as multiple specifically dependent continuants."@en ;
rdfs:label "is concretized as"@en .
### http://purl.obolibrary.org/obo/RO_0000059
obo:RO_0000059 rdf:type owl:ObjectProperty ,
owl:AsymmetricProperty ,
owl:IrreflexiveProperty ;
rdfs:domain obo:BFO_0000020 ;
rdfs:range obo:BFO_0000031 ;
obo:IAO_0000112 "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)."@en ,
"An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)."@en ;
obo:IAO_0000115 "A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant."@en ;
rdfs:label "concretizes"@en .
### http://purl.obolibrary.org/obo/RO_0000079
obo:RO_0000079 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000052 ;
owl:inverseOf obo:RO_0000085 ;
rdfs:domain obo:BFO_0000034 ;
obo:IAO_0000112 "this catalysis function is a function of this enzyme"@en ;
obo:IAO_0000115 "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence"@en ;
obo:IAO_0000116 "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists."@en ;
obo:IAO_0000118 "function_of"@en ,
"is function of"@en ;
rdfs:label "function of"@en .
### http://purl.obolibrary.org/obo/RO_0000080
obo:RO_0000080 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000052 ;
owl:inverseOf obo:RO_0000086 ;
obo:IAO_0000112 "this red color is a quality of this apple"@en ;
obo:IAO_0000115 "a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence"@en ;
obo:IAO_0000116 "A quality inheres in its bearer at all times for which the quality exists."@en ;
obo:IAO_0000118 "is quality of"@en ,
"quality_of"@en ;
rdfs:label "quality of"@en .
### http://purl.obolibrary.org/obo/RO_0000081
obo:RO_0000081 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000052 ;
owl:inverseOf obo:RO_0000087 ;
obo:IAO_0000112 "this investigator role is a role of this person"@en ;
obo:IAO_0000115 "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence"@en ;
obo:IAO_0000116 "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists."@en ;
obo:IAO_0000118 "is role of"@en ,
"role_of"@en ;
rdfs:label "role of"@en .
### http://purl.obolibrary.org/obo/RO_0000085
obo:RO_0000085 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000053 ;
rdfs:domain obo:BFO_0000004 ;
rdfs:range obo:BFO_0000034 ;
obo:IAO_0000112 "this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function)"@en ;
obo:IAO_0000115 "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence"@en ;
obo:IAO_0000116 "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists."@en ;
obo:IAO_0000118 "has_function"@en ;
rdfs:label "has function"@en .
### http://purl.obolibrary.org/obo/RO_0000086
obo:RO_0000086 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000053 ;
rdfs:range obo:BFO_0000019 ;
obo:IAO_0000112 "this apple has quality this red color"@en ;
obo:IAO_0000115 "a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence"@en ;
obo:IAO_0000116 "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist."@en ;
obo:IAO_0000118 "has_quality"@en ;
rdfs:label "has quality"@en .
### http://purl.obolibrary.org/obo/RO_0000087
obo:RO_0000087 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000053 ;
rdfs:domain obo:BFO_0000004 ;
rdfs:range obo:BFO_0000023 ;
obo:IAO_0000112 "this person has role this investigator role (more colloquially: this person has this role of investigator)"@en ;
obo:IAO_0000115 "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence"@en ;
obo:IAO_0000116 "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists."@en ;
obo:IAO_0000118 "has_role"@en ;
rdfs:label "has role"@en .
### http://purl.obolibrary.org/obo/RO_0000091
obo:RO_0000091 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000053 ;
owl:inverseOf obo:RO_0000092 ;
rdfs:domain obo:BFO_0000004 ;
rdfs:range obo:BFO_0000016 ;
obo:IAO_0000115 "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence"@en ;
rdfs:label "has disposition"@en .
### http://purl.obolibrary.org/obo/RO_0000092
obo:RO_0000092 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf obo:RO_0000052 ;
rdfs:label "disposition of"@en .
### http://purl.obolibrary.org/obo/RO_0001000
obo:RO_0001000 rdf:type owl:ObjectProperty ;
owl:inverseOf obo:RO_0001001 ;
rdfs:domain obo:BFO_0000040 ;
rdfs:range obo:BFO_0000040 ;
obo:IAO_0000112 "this cell derives from this parent cell (cell division)"@en ,
"this nucleus derives from this parent nucleus (nuclear division)"@en ;
obo:IAO_0000114 obo:IAO_0000125 ;
obo:IAO_0000115 "a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity"@en ;
obo:IAO_0000116 "This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops from'."@en ;
obo:IAO_0000118 "derives_from"@en ;
rdfs:label "derives from"@en .
### http://purl.obolibrary.org/obo/RO_0001001
obo:RO_0001001 rdf:type owl:ObjectProperty ;
rdfs:domain obo:BFO_0000040 ;
rdfs:range obo:BFO_0000040 ;
obo:IAO_0000112 "this parent cell derives into this cell (cell division)"@en ,
"this parent nucleus derives into this nucleus (nuclear division)"@en ;
obo:IAO_0000114 obo:IAO_0000125 ;
obo:IAO_0000115 "a relation between two distinct material entities, the old entity and the new entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity"@en ;
obo:IAO_0000116 "This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops into'. To avoid making statements about a future that may not come to pass, it is often better to use the backward-looking 'derives from' rather than the forward-looking 'derives into'."@en ;
obo:IAO_0000118 "derives_into"@en ;
rdfs:label "derives into"@en .
### http://purl.obolibrary.org/obo/RO_0001015
obo:RO_0001015 rdf:type owl:ObjectProperty ;
owl:inverseOf obo:RO_0001025 ;
rdf:type owl:TransitiveProperty ;
obo:IAO_0000111 "is location of"@en ;
obo:IAO_0000112 "my head is the location of my brain"@en ,
"this cage is the location of this rat"@en ;
obo:IAO_0000115 "a relation between two independent continuants, the location and the target, in which the target is entirely within the location"@en ;
obo:IAO_0000116 "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime"@en ;
obo:IAO_0000118 "location_of"@en ;
obo:RO_0001900 obo:RO_0001901 ;
rdfs:label "location of"@en .
### http://purl.obolibrary.org/obo/RO_0001025
obo:RO_0001025 rdf:type owl:ObjectProperty ,
owl:TransitiveProperty ;
obo:IAO_0000111 "located in"@en ;
obo:IAO_0000112 "my brain is located in my head"@en ,
"this rat is located in this cage"@en ;
obo:IAO_0000115 "a relation between two independent continuants, the target and the location, in which the target is entirely within the location"@en ;
obo:IAO_0000116 "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus"@en ,
"Most location relations will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime"@en ;
obo:IAO_0000118 "located_in"@en ;
obo:RO_0001900 obo:RO_0001901 ;
dc:source "http://www.obofoundry.org/ro/#OBO_REL:located_in" ;
rdfs:label "located in"@en .
### http://purl.obolibrary.org/obo/RO_0002000
obo:RO_0002000 rdf:type owl:ObjectProperty ;
owl:inverseOf obo:RO_0002002 ;
obo:IAO_0000112 "the surface of my skin is a 2D boundary of my body"@en ;
obo:IAO_0000115 "a relation between a 2D immaterial entity (the boundary) and a material entity, in which the boundary delimits the material entity"@en ;
obo:IAO_0000116 "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts."@en ,
"Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape."@en ;
obo:IAO_0000118 "2D_boundary_of"@en ,
"boundary of"@en ,
"is 2D boundary of"@en ,
"is boundary of"@en ;
obo:RO_0001900 obo:RO_0001901 ;
rdfs:label "2D boundary of"@en .
### http://purl.obolibrary.org/obo/RO_0002002
obo:RO_0002002 rdf:type owl:ObjectProperty ;
rdfs:domain obo:BFO_0000040 ;
rdfs:range obo:BFO_0000141 ;
obo:IAO_0000112 "my body has 2D boundary the surface of my skin"@en ;
obo:IAO_0000115 "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity"@en ;
obo:IAO_0000116 "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts."@en ,
"Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape."@en ;
obo:IAO_0000118 "has boundary"@en ,
"has_2D_boundary"@en ;
obo:RO_0001900 obo:RO_0001901 ;
rdfs:label "has 2D boundary"@en .
### http://purl.obolibrary.org/obo/RO_0002211
obo:RO_0002211 rdf:type owl:ObjectProperty ,
owl:TransitiveProperty ;
rdfs:domain obo:BFO_0000015 ;
rdfs:range obo:BFO_0000015 ;
obo:IAO_0000114 obo:IAO_0000125 ;
obo:IAO_0000115 "x regulates y if and only if the x is the realization of a function to exert an effect on the frequency, rate or extent of y" ;
obo:IAO_0000116 "We use 'regulates' here to specifically imply control. However, many colloquial usages of the term correctly correspond to the weaker relation of 'causally upstream of or within' (aka influences). Consider relabeling to make things more explicit" ;
obo:IAO_0000117 "Chris Mungall" ,
"David Hill" ,
"Tanya Berardini" ;
obo:IAO_0000119 <http://purl.obolibrary.org/obo/ro/docs/causal-relations> ,
"GO" ;
obo:IAO_0000232 "Regulation precludes parthood; the regulatory process may not be within the regulated process." ;
obo:IAO_0000589 "regulates (processual)" ;
obo:IAO_0000600 "false"^^xsd:boolean ;
rdfs:label "regulates"@en .
### http://purl.obolibrary.org/obo/RO_0002212