-
Notifications
You must be signed in to change notification settings - Fork 26
/
Copy pathobi_core.owl
4333 lines (3468 loc) · 308 KB
/
obi_core.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
<?xml version="1.0"?>
<rdf:RDF xmlns="http://purl.obolibrary.org/obo/obi/obi_core.owl#"
xml:base="http://purl.obolibrary.org/obo/obi/obi_core.owl"
xmlns:dc="http://purl.org/dc/elements/1.1/"
xmlns:obo="http://purl.obolibrary.org/obo/"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:xml="http://www.w3.org/XML/1998/namespace"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
xmlns:terms="http://purl.org/dc/terms/"
xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#">
<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/obi/obi_core.owl">
<owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/obi/2024-12-05/obi_core.owl"/>
<protege:defaultLanguage>en</protege:defaultLanguage>
<obo:IAO_0000589 xml:lang="en">Ontology for Biomedical Investigations</obo:IAO_0000589>
<dc:contributor xml:lang="en">Advisors for this project come from the IFOMIS group, Saarbruecken and from the Co-ODE group in Manchester</dc:contributor>
<dc:creator xml:lang="en">Alan Ruttenberg</dc:creator>
<dc:creator xml:lang="en">Allyson Lister</dc:creator>
<dc:creator xml:lang="en">Barry Smith</dc:creator>
<dc:creator xml:lang="en">Bill Bug</dc:creator>
<dc:creator xml:lang="en">Bjoern Peters</dc:creator>
<dc:creator xml:lang="en">Carlo Torniai</dc:creator>
<dc:creator xml:lang="en">Chris Mungall</dc:creator>
<dc:creator xml:lang="en">Chris Stoeckert</dc:creator>
<dc:creator xml:lang="en">Chris Taylor</dc:creator>
<dc:creator xml:lang="en">Christian Bolling</dc:creator>
<dc:creator xml:lang="en">Cristian Cocos</dc:creator>
<dc:creator xml:lang="en">Daniel Rubin</dc:creator>
<dc:creator xml:lang="en">Daniel Schober</dc:creator>
<dc:creator xml:lang="en">Dawn Field</dc:creator>
<dc:creator xml:lang="en">Dirk Derom</dc:creator>
<dc:creator xml:lang="en">Elisabetta Manduchi</dc:creator>
<dc:creator xml:lang="en">Eric Deutsch</dc:creator>
<dc:creator xml:lang="en">Frank Gibson</dc:creator>
<dc:creator xml:lang="en">Gilberto Fragoso</dc:creator>
<dc:creator xml:lang="en">Helen C. Causton</dc:creator>
<dc:creator xml:lang="en">Helen Parkinson</dc:creator>
<dc:creator xml:lang="en">Holger Stenzhorn</dc:creator>
<dc:creator xml:lang="en">James A. Overton</dc:creator>
<dc:creator xml:lang="en">James Malone</dc:creator>
<dc:creator xml:lang="en">Jay Greenbaum</dc:creator>
<dc:creator xml:lang="en">Jeffrey Grethe</dc:creator>
<dc:creator xml:lang="en">Jennifer Fostel</dc:creator>
<dc:creator xml:lang="en">Jessica Turner</dc:creator>
<dc:creator xml:lang="en">Jie Zheng</dc:creator>
<dc:creator xml:lang="en">Joe White</dc:creator>
<dc:creator xml:lang="en">John Westbrook</dc:creator>
<dc:creator xml:lang="en">Kevin Clancy</dc:creator>
<dc:creator xml:lang="en">Larisa Soldatova</dc:creator>
<dc:creator xml:lang="en">Lawrence Hunter</dc:creator>
<dc:creator xml:lang="en">Liju Fan</dc:creator>
<dc:creator xml:lang="en">Luisa Montecchi</dc:creator>
<dc:creator xml:lang="en">Matthew Brush</dc:creator>
<dc:creator xml:lang="en">Matthew Pocock</dc:creator>
<dc:creator xml:lang="en">Melanie Courtot</dc:creator>
<dc:creator xml:lang="en">Melissa Haendel</dc:creator>
<dc:creator xml:lang="en">Mervi Heiskanen</dc:creator>
<dc:creator xml:lang="en">Monnie McGee</dc:creator>
<dc:creator xml:lang="en">Norman Morrison</dc:creator>
<dc:creator xml:lang="en">Philippe Rocca-Serra</dc:creator>
<dc:creator xml:lang="en">Phillip Lord</dc:creator>
<dc:creator xml:lang="en">Pierre Grenon</dc:creator>
<dc:creator xml:lang="en">Richard Bruskiewich</dc:creator>
<dc:creator xml:lang="en">Richard Scheuermann</dc:creator>
<dc:creator xml:lang="en">Robert Stevens</dc:creator>
<dc:creator xml:lang="en">Ryan R. Brinkman</dc:creator>
<dc:creator xml:lang="en">Stefan Wiemann</dc:creator>
<dc:creator xml:lang="en">Susanna-Assunta Sansone</dc:creator>
<dc:creator xml:lang="en">Tanya Gray</dc:creator>
<dc:creator xml:lang="en">Tina Hernandez-Boussard</dc:creator>
<dc:creator xml:lang="en">Trish Whetzel</dc:creator>
<dc:creator xml:lang="en">Yongqun He</dc:creator>
<dc:date rdf:datatype="http://www.w3.org/2001/XMLSchema#date">2009-07-31</dc:date>
<dc:description xml:lang="en">An ontology for representing biomedical investigations, including study designs, the collection and preparation of the targets of investigation, assays, instrumentation and reagents used, as well as the data generated and the types of analysis performed on the data to reach conclusions, and their documentation.</dc:description>
<dc:format xml:lang="en">OWL-DL</dc:format>
<dc:subject xml:lang="en">An ontology for the annotation of biomedical and functional genomics experiments.</dc:subject>
<terms:license>http://creativecommons.org/licenses/by/4.0/</terms:license>
<terms:title>Ontology for Biomedical Investigations</terms:title>
<rdfs:comment>Please cite the OBI consortium http://purl.obolibrary.org/obo/obi where traditional citation is called for. However it is adequate that individual terms be attributed simply by use of the identifying PURL for the term, in projects that refer to them.</rdfs:comment>
<owl:versionInfo>2024-12-05</owl:versionInfo>
</owl:Ontology>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Annotation properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://protege.stanford.edu/plugins/owl/protege#defaultLanguage -->
<owl:AnnotationProperty rdf:about="http://protege.stanford.edu/plugins/owl/protege#defaultLanguage"/>
<!-- http://purl.obolibrary.org/obo/BFO_0000179 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000179">
<obo:IAO_0000115 xml:lang="en">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.</obo:IAO_0000115>
<obo:IAO_0000232 xml:lang="en">Really of interest to developers only</obo:IAO_0000232>
<rdfs:label xml:lang="en">BFO OWL specification label</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000180 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000180">
<obo:IAO_0000115 xml:lang="en">Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2</obo:IAO_0000115>
<obo:IAO_0000119>Person:Alan Ruttenberg</obo:IAO_0000119>
<obo:IAO_0000232 xml:lang="en">Really of interest to developers only</obo:IAO_0000232>
<rdfs:label xml:lang="en">BFO CLIF specification label</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000111 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000111">
<obo:IAO_0000111 xml:lang="en">editor preferred label</obo:IAO_0000111>
<obo:IAO_0000111>editor preferred term</obo:IAO_0000111>
<obo:IAO_0000111 xml:lang="en">editor preferred term</obo:IAO_0000111>
<obo:IAO_0000111>editor preferred term~editor preferred label</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English)</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">editor preferred label</rdfs:label>
<rdfs:label>editor preferred term</rdfs:label>
<rdfs:label xml:lang="en">editor preferred term</rdfs:label>
<rdfs:label>editor preferred term~editor preferred label</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000112 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000112">
<obo:IAO_0000111 xml:lang="en">example of usage</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">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.</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">example of usage</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000114 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000114">
<obo:IAO_0000111 xml:lang="en">has curation status</obo:IAO_0000111>
<obo:IAO_0000117 xml:lang="en">PERSON:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000117 xml:lang="en">PERSON:Bill Bug</obo:IAO_0000117>
<obo:IAO_0000117 xml:lang="en">PERSON:Melanie Courtot</obo:IAO_0000117>
<rdfs:label xml:lang="en">has curation status</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000115 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000115">
<obo:IAO_0000111>definition</obo:IAO_0000111>
<obo:IAO_0000111 xml:lang="en">definition</obo:IAO_0000111>
<obo:IAO_0000111>textual definition</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">The official OBI definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.</obo:IAO_0000115>
<obo:IAO_0000115 xml:lang="en">The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">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.</obo:IAO_0000116>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label>definition</rdfs:label>
<rdfs:label xml:lang="en">definition</rdfs:label>
<rdfs:label>textual definition</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000116 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000116">
<obo:IAO_0000111 xml:lang="en">editor note</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">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.</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obofoundry.org/obo/obi></obo:IAO_0000119>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">editor note</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000117 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000117">
<obo:IAO_0000111 xml:lang="en">term editor</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">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</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115.</obo:IAO_0000116>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">term editor</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000118 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000118">
<obo:IAO_0000111 xml:lang="en">alternative label</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
<obo:IAO_0000115 xml:lang="en">A label for a class or property that can be used to refer to the class or property instead of the preferred rdfs:label. Alternative labels should be used to indicate community- or context-specific labels, abbreviations, shorthand forms and the like.</obo:IAO_0000115>
<obo:IAO_0000117>OBO Operations committee</obo:IAO_0000117>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<rdfs:comment>Consider re-defing to: An alternative name for a class or property which can mean the same thing as the preferred name (semantically equivalent, narrow, broad or related).</rdfs:comment>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">alternative label</rdfs:label>
<rdfs:label xml:lang="en">alternative term</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000119 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000119">
<obo:IAO_0000111 xml:lang="en">definition source</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">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</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel Schober</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w</obo:IAO_0000119>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">definition source</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000232 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000232">
<obo:IAO_0000111 xml:lang="en">curator note</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">An administrative note of use for a curator but of no use for a user</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON:Alan Ruttenberg</obo:IAO_0000117>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">curator note</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000233 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000233"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000234 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000234"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000412 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000412">
<obo:IAO_0000111 xml:lang="en">imported from</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
<obo:IAO_0000115 xml:lang="en">For external terms/classes, the ontology from which the term was imported</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000117 xml:lang="en">PERSON:Melanie Courtot</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">GROUP:OBI:<http://purl.obolibrary.org/obo/obi></obo:IAO_0000119>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">imported from</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000589 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000589"/>
<!-- http://purl.obolibrary.org/obo/IAO_0000600 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000600">
<obo:IAO_0000111 xml:lang="en">elucidation</obo:IAO_0000111>
<obo:IAO_0000117 xml:lang="en">person:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">Person:Barry Smith</obo:IAO_0000119>
<obo:IAO_0000600 xml:lang="en">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</obo:IAO_0000600>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">elucidation</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000601 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000601">
<obo:IAO_0000111 xml:lang="en">has associated axiom(nl)</obo:IAO_0000111>
<obo:IAO_0000117 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000119>
<obo:IAO_0000600 xml:lang="en">An axiom associated with a term expressed using natural language</obo:IAO_0000600>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">has associated axiom(nl)</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000602 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000602">
<obo:IAO_0000111 xml:lang="en">has associated axiom(fol)</obo:IAO_0000111>
<obo:IAO_0000117 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000119>
<obo:IAO_0000600 xml:lang="en">An axiom expressed in first order logic using CLIF syntax</obo:IAO_0000600>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">has associated axiom(fol)</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0010000 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0010000">
<obo:IAO_0000111 xml:lang="en">has axiom id</obo:IAO_0000111>
<obo:IAO_0000117 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000119 xml:lang="en">Person:Alan Ruttenberg</obo:IAO_0000119>
<obo:IAO_0000600 xml:lang="en">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</obo:IAO_0000600>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">has axiom label</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0001847 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0001847">
<obo:IAO_0000111 xml:lang="en">ISA alternative term</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">An alternative term used by the ISA tools project (http://isa-tools.org).</obo:IAO_0000115>
<obo:IAO_0000116>Requested by Alejandra Gonzalez-Beltran
https://sourceforge.net/tracker/?func=detail&aid=3603413&group_id=177891&atid=886178</obo:IAO_0000116>
<obo:IAO_0000117>Person: Alejandra Gonzalez-Beltran</obo:IAO_0000117>
<obo:IAO_0000117>Person: Philippe Rocca-Serra</obo:IAO_0000117>
<obo:IAO_0000119>ISA tools project (http://isa-tools.org)</obo:IAO_0000119>
<rdfs:label xml:lang="en">ISA alternative term</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/OBI_9991118 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/OBI_9991118">
<obo:IAO_0000111>IEDB alternative term</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">An alternative term used by the IEDB.</obo:IAO_0000115>
<obo:IAO_0000117>PERSON:Randi Vita, Jason Greenbaum, Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000119>IEDB</obo:IAO_0000119>
<rdfs:label>IEDB alternative term</rdfs:label>
</owl:AnnotationProperty>
<!-- http://purl.obolibrary.org/obo/RO_0001900 -->
<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0001900">
<rdfs:label xml:lang="en">temporal interpretation</rdfs:label>
<rdfs:seeAlso rdf:datatype="http://www.w3.org/2001/XMLSchema#anyURI">https://oborel.github.io/obo-relations/temporal-semantics/</rdfs:seeAlso>
</owl:AnnotationProperty>
<!-- http://purl.org/dc/elements/1.1/contributor -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/contributor"/>
<!-- http://purl.org/dc/elements/1.1/creator -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/creator"/>
<!-- http://purl.org/dc/elements/1.1/date -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/date"/>
<!-- http://purl.org/dc/elements/1.1/description -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/description"/>
<!-- http://purl.org/dc/elements/1.1/format -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/format"/>
<!-- http://purl.org/dc/elements/1.1/source -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/source"/>
<!-- http://purl.org/dc/elements/1.1/subject -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/subject"/>
<!-- http://purl.org/dc/terms/license -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/license"/>
<!-- http://purl.org/dc/terms/title -->
<owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/title"/>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Datatypes
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://www.w3.org/1999/02/22-rdf-syntax-ns#PlainLiteral -->
<rdfs:Datatype rdf:about="http://www.w3.org/1999/02/22-rdf-syntax-ns#PlainLiteral"/>
<!-- http://www.w3.org/2001/XMLSchema#date -->
<rdfs:Datatype rdf:about="http://www.w3.org/2001/XMLSchema#date"/>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Object Properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/BFO_0000050 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000050">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#TransitiveProperty"/>
<obo:IAO_0000111 xml:lang="en">is part of</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">my brain is part of my body (continuant parthood, two material entities)</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this day is part of this year (occurrent parthood)</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">a core relation that holds between a part and its whole</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">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.</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="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</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="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'.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">part_of</obo:IAO_0000118>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<rdfs:label xml:lang="en">part of</rdfs:label>
<rdfs:seeAlso>http://www.obofoundry.org/ro/#OBO_REL:part_of</rdfs:seeAlso>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000051 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000051">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#TransitiveProperty"/>
<obo:IAO_0000111 xml:lang="en">has part</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">my body has part my brain (continuant parthood, two material entities)</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this year has part this day (occurrent parthood)</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">a core relation that holds between a whole and its part</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">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.</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="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</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="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'.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">has_part</obo:IAO_0000118>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<rdfs:label xml:lang="en">has part</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000054 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000054">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000055"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<obo:IAO_0000111 xml:lang="en">realized in</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">this disease is realized in this disease course</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this fragility is realized in this shattering</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this investigator role is realized in this investigation</obo:IAO_0000112>
<obo:IAO_0000118 xml:lang="en">is realized by</obo:IAO_0000118>
<obo:IAO_0000118 xml:lang="en">realized_in</obo:IAO_0000118>
<obo:IAO_0000600 xml:lang="en">[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])</obo:IAO_0000600>
<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:comment>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
<rdfs:label xml:lang="en">realized in</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/BFO_0000055 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/BFO_0000055">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
<obo:IAO_0000111 xml:lang="en">realizes</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">this disease course realizes this disease</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this investigation realizes this investigator role</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this shattering realizes this fragility</obo:IAO_0000112>
<obo:IAO_0000600 xml:lang="en">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])</obo:IAO_0000600>
<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:comment>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">realizes</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000136 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000136">
<obo:IAO_0000111 xml:lang="en">is about</obo:IAO_0000111>
<obo:IAO_0000115 xml:lang="en">A (currently) primitive relation that relates an information artifact to an entity.</obo:IAO_0000115>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">is about</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000219 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000219">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000136"/>
<obo:IAO_0000111 xml:lang="en">denotes</obo:IAO_0000111>
<obo:IAO_0000115 xml:lang="en">A primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together. Freedictionary.com sense 3: To signify directly; refer to specifically</obo:IAO_0000115>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">denotes</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/IAO_0000235 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000235">
<obo:IAO_0000111 xml:lang="en">denoted by</obo:IAO_0000111>
<obo:IAO_0000115 xml:lang="en">inverse of the relation 'denotes'</obo:IAO_0000115>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<rdfs:label xml:lang="en">denoted by</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000124 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000124">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/OBI_0001909"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/IAO_0000027"/>
<obo:IAO_0000111>is_supported_by_data</obo:IAO_0000111>
<obo:IAO_0000112>The relation between the conclusion "Gene tpbA is involved in EPS production" and the data items produced using two sets of organisms, one being a tpbA knockout, the other being tpbA wildtype tested in polysacharide production assays and analyzed using an ANOVA.</obo:IAO_0000112>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">The relation between a data item and a conclusion where the conclusion is the output of a data interpreting process and the data item is used as an input to that process</obo:IAO_0000115>
<obo:IAO_0000117>OBI</obo:IAO_0000117>
<obo:IAO_0000119>OBI</obo:IAO_0000119>
<obo:IAO_0000119>Philly 2011 workshop</obo:IAO_0000119>
<rdfs:label>is_supported_by_data</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000293 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000293">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000295"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<obo:IAO_0000111>has_specified_input</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">see is_input_of example_of_usage</obo:IAO_0000112>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">The inverse property of is_specified_input_of</obo:IAO_0000115>
<obo:IAO_0000116>8/17/09: specified inputs of one process are not necessarily specified inputs of a larger process that it is part of. This is in contrast to how 'has participant' works.</obo:IAO_0000116>
<obo:IAO_0000117 xml:lang="en">PERSON: Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000117>PERSON: Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000117>PERSON: Larry Hunter</obo:IAO_0000117>
<obo:IAO_0000117>PERSON: Melanie Coutot</obo:IAO_0000117>
<rdfs:label xml:lang="en">has_specified_input</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000295 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000295">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<obo:IAO_0000111>is_specified_input_of</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">some Autologous EBV(Epstein-Barr virus)-transformed B-LCL (B lymphocyte cell line) is_input_for instance of Chromum Release Assay described at https://wiki.cbil.upenn.edu/obiwiki/index.php/Chromium_Release_assay</obo:IAO_0000112>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">A relation between a planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of.</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000117>PERSON:Bjoern Peters</obo:IAO_0000117>
<rdfs:label xml:lang="en">is_specified_input_of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000299 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000299">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000312"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<obo:IAO_0000111>has_specified_output</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">The inverse property of is_specified_output_of</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">PERSON: Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000117>PERSON: Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000117>PERSON: Larry Hunter</obo:IAO_0000117>
<obo:IAO_0000117>PERSON: Melanie Courtot</obo:IAO_0000117>
<rdfs:label xml:lang="en">has_specified_output</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000312 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000312">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000056"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<obo:IAO_0000111>is_specified_output_of</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of.</obo:IAO_0000115>
<obo:IAO_0000117 xml:lang="en">Alan Ruttenberg</obo:IAO_0000117>
<obo:IAO_0000117>PERSON:Bjoern Peters</obo:IAO_0000117>
<rdfs:label xml:lang="en">is_specified_output_of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000417 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000417">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000833"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/IAO_0000005"/>
<obo:IAO_0000111>achieves_planned_objective</obo:IAO_0000111>
<obo:IAO_0000112>A cell sorting process achieves the objective specification 'material separation objective'</obo:IAO_0000112>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000120"/>
<obo:IAO_0000115 xml:lang="en">This relation obtains between a planned process and a objective specification when the criteria specified in the objective specification are met at the end of the planned process.</obo:IAO_0000115>
<obo:IAO_0000117>BP, AR, PPPB branch</obo:IAO_0000117>
<obo:IAO_0000119>PPPB branch derived</obo:IAO_0000119>
<obo:IAO_0000232>modified according to email thread from 1/23/09 in accordince with DT and PPPB branch</obo:IAO_0000232>
<rdfs:label>achieves_planned_objective</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0000833 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0000833">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/IAO_0000005"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
<obo:IAO_0000111>objective_achieved_by</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">This relation obtains between an objective specification and a planned process when the criteria specified in the objective specification are met at the end of the planned process.</obo:IAO_0000115>
<obo:IAO_0000117>OBI</obo:IAO_0000117>
<obo:IAO_0000119>OBI</obo:IAO_0000119>
<rdfs:label>objective_achieved_by</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/OBI_0001938 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/OBI_0001938">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/IAO_0000030"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/OBI_0001933"/>
<obo:IAO_0000111>has value specification</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000120"/>
<obo:IAO_0000115 xml:lang="en">A relation between an information content entity and a value specification that specifies its value.</obo:IAO_0000115>
<obo:IAO_0000117>PERSON: James A. Overton</obo:IAO_0000117>
<obo:IAO_0000119>OBI</obo:IAO_0000119>
<rdfs:label>has value specification</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000052 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000052">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000053"/>
<obo:IAO_0000111 xml:lang="en">inheres in</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">this fragility inheres in this vase</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this red color inheres in this apple</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">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</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">A dependent inheres in its bearer at all times for which the dependent exists.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">inheres_in</obo:IAO_0000118>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<rdfs:label xml:lang="en">inheres in</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000053 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000053">
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
<obo:IAO_0000111 xml:lang="en">bearer of</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">this apple is bearer of this red color</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this vase is bearer of this fragility</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">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</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">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.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">bearer_of</obo:IAO_0000118>
<obo:IAO_0000118 xml:lang="en">is bearer of</obo:IAO_0000118>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<rdfs:label xml:lang="en">bearer of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000056 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000056">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000057"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000002"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000003"/>
<obo:IAO_0000111 xml:lang="en">participates in</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">this blood clot participates in this blood coagulation</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this input material (or this output material) participates in this process</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this investigator participates in this investigation</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">a relation between a continuant and a process, in which the continuant is somehow involved in the process</obo:IAO_0000115>
<obo:IAO_0000118 xml:lang="en">participates_in</obo:IAO_0000118>
<rdfs:label xml:lang="en">participates in</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000057 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000057">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000003"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000002"/>
<obo:IAO_0000111 xml:lang="en">has participant</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">this blood coagulation has participant this blood clot</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this investigation has participant this investigator</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this process has participant this input material (or this output material)</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">a relation between a process and a continuant, in which the continuant is somehow involved in the process</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">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.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">has_participant</obo:IAO_0000118>
<dc:source>http://www.obofoundry.org/ro/#OBO_REL:has_participant</dc:source>
<rdfs:label xml:lang="en">has participant</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000058 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000058">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000059"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000031"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
<obo:IAO_0000112 xml:lang="en">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).</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="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).</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">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.</obo:IAO_0000115>
<rdfs:label xml:lang="en">is concretized as</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000059 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000059">
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000031"/>
<obo:IAO_0000112 xml:lang="en">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).</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="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).</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">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.</obo:IAO_0000115>
<rdfs:label xml:lang="en">concretizes</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000079 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000079">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000052"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000085"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000034"/>
<obo:IAO_0000112 xml:lang="en">this catalysis function is a function of this enzyme</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">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.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">function_of</obo:IAO_0000118>
<obo:IAO_0000118 xml:lang="en">is function of</obo:IAO_0000118>
<rdfs:label xml:lang="en">function of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000081 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000081">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000052"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000087"/>
<obo:IAO_0000112 xml:lang="en">this investigator role is a role of this person</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">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.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">is role of</obo:IAO_0000118>
<obo:IAO_0000118 xml:lang="en">role_of</obo:IAO_0000118>
<rdfs:label xml:lang="en">role of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000085 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000085">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000053"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000034"/>
<obo:IAO_0000112 xml:lang="en">this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function)</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">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.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">has_function</obo:IAO_0000118>
<rdfs:label xml:lang="en">has function</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0000087 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0000087">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/RO_0000053"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000004"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000023"/>
<obo:IAO_0000112 xml:lang="en">this person has role this investigator role (more colloquially: this person has this role of investigator)</obo:IAO_0000112>
<obo:IAO_0000115 xml:lang="en">a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">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.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">has_role</obo:IAO_0000118>
<rdfs:label xml:lang="en">has role</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0001000 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0001000">
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0001001"/>
<rdfs:domain rdf:resource="http://purl.obolibrary.org/obo/BFO_0000004"/>
<rdfs:range rdf:resource="http://purl.obolibrary.org/obo/BFO_0000004"/>
<obo:IAO_0000111>derives from</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">this cell derives from this parent cell (cell division)</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this nucleus derives from this parent nucleus (nuclear division)</obo:IAO_0000112>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
<obo:IAO_0000115 xml:lang="en">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</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops from'.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">derives_from</obo:IAO_0000118>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/ro.owl"/>
<rdfs:label xml:lang="en">derives from</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0001001 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0001001">
<obo:IAO_0000112 xml:lang="en">this parent cell derives into this cell (cell division)</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">this parent nucleus derives into this nucleus (nuclear division)</obo:IAO_0000112>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
<obo:IAO_0000115 xml:lang="en">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</obo:IAO_0000115>
<obo:IAO_0000116 xml:lang="en">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'.</obo:IAO_0000116>
<obo:IAO_0000118 xml:lang="en">derives_into</obo:IAO_0000118>
<rdfs:label xml:lang="en">derives into</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0002350 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002350">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>
<owl:inverseOf rdf:resource="http://purl.obolibrary.org/obo/RO_0002351"/>
<obo:IAO_0000112>An organism that is a member of a population of organisms</obo:IAO_0000112>
<obo:IAO_0000115>is member of is a mereological relation between a item and a collection.</obo:IAO_0000115>
<obo:IAO_0000118>is member of</obo:IAO_0000118>
<obo:IAO_0000118>member part of</obo:IAO_0000118>
<obo:IAO_0000119>SIO</obo:IAO_0000119>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<rdfs:label xml:lang="en">member of</rdfs:label>
</owl:ObjectProperty>
<!-- http://purl.obolibrary.org/obo/RO_0002351 -->
<owl:ObjectProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002351">
<rdfs:subPropertyOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#IrreflexiveProperty"/>
<obo:IAO_0000115>has member is a mereological relation between a collection and an item.</obo:IAO_0000115>
<obo:IAO_0000119>SIO</obo:IAO_0000119>
<obo:RO_0001900 rdf:resource="http://purl.obolibrary.org/obo/RO_0001901"/>
<rdfs:label xml:lang="en">has member</rdfs:label>
</owl:ObjectProperty>
<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Classes
//
///////////////////////////////////////////////////////////////////////////////////////
-->
<!-- http://purl.obolibrary.org/obo/BFO_0000001 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000001">
<obo:BFO_0000179>entity</obo:BFO_0000179>
<obo:BFO_0000180>Entity</obo:BFO_0000180>
<obo:IAO_0000111 xml:lang="en">entity</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">Julius Caesar</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">Verdi’s Requiem</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">the Second World War</obo:IAO_0000112>
<obo:IAO_0000112 xml:lang="en">your body mass index</obo:IAO_0000112>
<obo:IAO_0000116 xml:lang="en">BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="en">Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf</obo:IAO_0000116>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
<obo:IAO_0000600 xml:lang="en">An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])</obo:IAO_0000600>
<rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
<rdfs:label xml:lang="en">entity</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/BFO_0000001"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000116"/>
<owl:annotatedTarget xml:lang="en">Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf</owl:annotatedTarget>
<obo:IAO_0010000 rdf:resource="http://purl.obolibrary.org/obo/bfo/axiom/0000004"/>
<rdfs:comment>per discussion with Barry Smith</rdfs:comment>
<rdfs:seeAlso rdf:resource="http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf"/>
</owl:Axiom>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/BFO_0000001"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000600"/>