/
npo.ttl
19970 lines (18018 loc) · 639 KB
/
npo.ttl
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 : <file:///ERROR/EMPTY/PREFIX/BANNED/> .
@prefix AIBSTL: <http://api.brain-map.org/api/v2/data/TransgenicLine/> .
@prefix atom: <http://uri.interlex.org/tgbugs/uris/readable/atlas/> .
@prefix BFO: <http://purl.obolibrary.org/obo/BFO_> .
@prefix BIRNLEX: <http://uri.neuinfo.org/nif/nifstd/birnlex_> .
@prefix CHEBI: <http://purl.obolibrary.org/obo/CHEBI_> .
@prefix CL: <http://purl.obolibrary.org/obo/CL_> .
@prefix dc: <http://purl.org/dc/elements/1.1/> .
@prefix dcterms: <http://purl.org/dc/terms/> .
@prefix definition: <http://purl.obolibrary.org/obo/IAO_0000115> .
@prefix doap: <http://usefulinc.com/ns/doap#> .
@prefix FMA: <http://purl.org/sig/ont/fma/fma> .
@prefix GO: <http://purl.obolibrary.org/obo/GO_> .
@prefix hasPart: <http://purl.obolibrary.org/obo/BFO_0000051> .
@prefix hasRole: <http://purl.obolibrary.org/obo/RO_0000087> .
@prefix ILX: <http://uri.interlex.org/base/ilx_> .
@prefix ilx.hasDbXref: <http://uri.interlex.org/base/ilx_0381360> .
@prefix ilx.hasRole: <http://uri.interlex.org/base/ilx_0112784> .
@prefix ilx.partOf: <http://uri.interlex.org/base/ilx_0112785> .
@prefix ilx.relatedTo: <http://uri.interlex.org/base/ilx_0112796> .
@prefix ilx.type: <http://uri.interlex.org/base/readable/type/> .
@prefix ilxr: <http://uri.interlex.org/base/readable/> .
@prefix ilxtr: <http://uri.interlex.org/tgbugs/uris/readable/> .
@prefix MIRO: <http://uri.interlex.org/MIRO/uris/readable/> .
@prefix NCBIGene: <http://www.ncbi.nlm.nih.gov/gene/> .
@prefix NCBITaxon: <http://purl.obolibrary.org/obo/NCBITaxon_> .
@prefix NIFEXT: <http://uri.neuinfo.org/nif/nifstd/nifext_> .
@prefix NIFRID: <http://uri.neuinfo.org/nif/nifstd/readable/> .
@prefix NLX: <http://uri.neuinfo.org/nif/nifstd/nlx_> .
@prefix NLXANAT: <http://uri.neuinfo.org/nif/nifstd/nlx_anat_> .
@prefix NLXMOL: <http://uri.neuinfo.org/nif/nifstd/nlx_mol_> .
@prefix NLXORG: <http://uri.neuinfo.org/nif/nifstd/nlx_organ_> .
@prefix NLXWIKI: <http://neurolex.org/wiki/> .
@prefix npokb: <http://uri.interlex.org/npo/uris/neurons/> .
@prefix OBI: <http://purl.obolibrary.org/obo/OBI_> .
@prefix obo: <http://purl.obolibrary.org/obo/> .
@prefix overlaps: <http://purl.obolibrary.org/obo/RO_0002131> .
@prefix owl: <http://www.w3.org/2002/07/owl#> .
@prefix partOf: <http://purl.obolibrary.org/obo/BFO_0000050> .
@prefix PATO: <http://purl.obolibrary.org/obo/PATO_> .
@prefix PAXRAT: <http://uri.interlex.org/paxinos/uris/rat/labels/> .
@prefix PAXSPN: <http://uri.interlex.org/paxinos/uris/spine/labels/> .
@prefix PR: <http://purl.obolibrary.org/obo/PR_> .
@prefix prov: <http://www.w3.org/ns/prov#> .
@prefix PTHR: <http://www.pantherdb.org/panther/family.do?clsAccession=PTHR> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix RO: <http://purl.obolibrary.org/obo/RO_> .
@prefix SAO: <http://uri.neuinfo.org/nif/nifstd/sao> .
@prefix skos: <http://www.w3.org/2004/02/skos/core#> .
@prefix SO: <http://purl.obolibrary.org/obo/SO_> .
@prefix TEMPIND: <http://uri.interlex.org/temp/uris/phenotype-indicators/> .
@prefix UBERON: <http://purl.obolibrary.org/obo/UBERON_> .
<https://raw.githubusercontent.com/SciCrunch/NIF-Ontology/neurons/ttl/npo.ttl> a owl:Ontology ;
owl:imports <https://raw.githubusercontent.com/SciCrunch/NIF-Ontology/neurons/ttl/bridge/neuron-bridge.ttl>,
<https://raw.githubusercontent.com/SciCrunch/NIF-Ontology/neurons/ttl/generated/allen-transgenic-lines.ttl>,
<https://raw.githubusercontent.com/SciCrunch/NIF-Ontology/neurons/ttl/generated/parcellation/mbaslim.ttl>,
obo:bfo.owl ;
rdfs:label "The Neuron Phenotype Ontology" ;
dc:title "The Neuron Phenotype Ontology" ;
dc:description "An ontology of neuron types based on the phenotypic dimensions of cells that can be measure experimentally." ;
owl:versionInfo "2024-03-04" ;
dc:contributor "Bernard de Bono - https://orcid.org/0000-0003-0638-5274",
"Fahim Imam - https://orcid.org/0000-0003-4752-543X",
"Ilias Ziogas - https://orcid.org/0000-0002-9210-2455",
"Jyl Boline - https://orcid.org/0000-0001-5232-8364",
"Mohameth François Sy - https://orcid.org/0000-0002-4603-9838",
"Monique Surles-Zeigler - https://orcid.org/0000-0002-2308-8813",
"Shreejoy Tripathy - https://orcid.org/0000-0002-1007-9061",
"Susan Tappan - https://orcid.org/0000-0001-5120-3770" ;
dc:creator "Maryann Martone - https://orcid.org/0000-0002-8406-3871",
"Sean Hill - https://orcid.org/0000-0001-8055-860X",
"Tom Gillespie - https://orcid.org/0000-0002-7509-4801" ;
dcterms:license <http://spdx.org/licenses/CC-BY-4.0> ;
doap:audience "researchers working on cell types and their phenotypes, whether they are collecting raw data, organizing existing data, or creating simulations of cell types" ;
doap:bug-database <https://github.com/SciCrunch/NIF-Ontology/issues> ;
doap:GitRespository <https://github.com/SciCrunch/NIF-Ontology> ;
ilxtr:indexNamespace npokb: ;
MIRO:axiom_patterns <https://github.com/SciCrunch/NIF-Ontology/blob/neurons/docs/Neurons.md>,
<https://github.com/tgbugs/pyontutils/blob/master/neurondm/docs/basic-model.org> ;
MIRO:competition <https://github.com/obophenotype/cell-ontology> ;
MIRO:dereferenceable_iris "`npokb:' and `ilxtr:' identifiers are not currently dereferenceable, but they are planned to be." ;
MIRO:development_community <https://github.com/SciCrunch/NIF-Ontology> ;
MIRO:development_environment "Protégé, FaCT++, ELK, python, pyontutils, neurondm" ;
MIRO:entity_deprecation_strategy "Specific ontology ids are never deprecated. If you need to know whether the modeling of a class has changed, neurondm can be used to regenerate the deterministic identifiers that appear as `ilxtr:hasTemporaryId'." ;
MIRO:entity_metadata_policy "`rdfs:label' must be present. `skos:prefLabel' must be present for common usage types, and should be present when possible for evidence based models. Since the constituent ontology files that make up the npo are generated using python, provenance is primarily stored in the git repository pointed to via the `prov:wasGeneratedBy' predicate in the `owl:Ontology' header for individual files, in this case that repository is `<https://github.com/tgbugs/pyontutils>'" ;
MIRO:entity_naming_convention "`rdfs:label' must be automatically generated using neurondm. Labels are generated from the labels of the constituent phenotype values. Only restrictions specifying necessary criteria for defining the type (i.e. those that are contained in an `owl:equivalentClass' statement) are included when generating the name. The ordering of the dimensions is specified in https://github.com/tgbugs/pyontutils/blob/a5e9fcc70d56870e692c17cb7fadce735a281d02/neurondm/neurondm/core.py#L135-L389" ;
MIRO:evaluation "No external evaluation has been conducted. See https://doi.org/10.1007/s12021-022-09566-7" ;
MIRO:example_of_use <https://doi.org/10.1007/s12021-022-09566-7> ;
MIRO:identifier_generation_policy "`npokb:[0-9]+' identifiers are assigned sequentially via https://github.com/tgbugs/pyontutils/blob/a5e9fcc70d56870e692c17cb7fadce735a281d02/nifstd/nifstd_tools/map-identifiers.py#L20-L49. An index of issued identifiers is retained at https://github.com/SciCrunch/NIF-Ontology/blob/neurons/ttl/generated/neurons/npokb-index.ttl. Note that the current implementation currently does not correctly handles cases where the constituent phenotypes of a class change." ;
MIRO:knowledge_acquisition_methodology <https://doi.org/10.1007/s12021-022-09566-7> ;
MIRO:knowledge_representation_language <http://www.w3.org/2002/07/owl> ;
MIRO:methodological_framework <https://doi.org/10.1007/s12021-022-09566-7> ;
MIRO:need "There is a need to bridge the gap between historical definitions of cell types from the literature, with cell types being defined using a wide variety of new techniques. There is also a need to be able to bridge and reconcile the wide variety of local terminology used across laboratories and place them on more solid foundations derived from the methodology used to make measurements on cells." ;
MIRO:scope_and_coverage "Scope: neuron types, and the dimensions and values of their constituent phenotypes. Coverage: an inventory of common usage types from existing sources, as well as three examples of evidence based models of cell types from recent publications." ;
MIRO:source_knowledge_location <https://doi.org/10.1007/s12021-022-09566-7> ;
MIRO:sustainability_plan "The npo is maintained as part of the NIF-Ontology." ;
MIRO:testing "See `MIRO:axiom_patterns' and paper https://doi.org/10.1007/s12021-022-09566-7" ;
MIRO:versioning_policy "Development versions of the ontology are released continuously and are identified by their git commit hashes. Stable versions are released periodically and can be accessed by their git tag." ;
prov:wasGeneratedBy <https://github.com/tgbugs/pyontutils/blob/master/neurondm/neurondm/build.py> .
### Object Properties
hasPart: a owl:ObjectProperty,
owl:TransitiveProperty ;
rdfs:label "has part" ;
rdfs:subPropertyOf overlaps: .
ilx.partOf: a owl:Class,
owl:ObjectProperty ;
rdfs:label "Is part of" ;
definition: "Generic partonomy relationship; does not distinguish among subtypes" ;
rdfs:subPropertyOf partOf: ;
ilxr:type ilx.type:relationship ;
ilxtr:hasExistingId ilx.partOf: ;
ilxtr:hasIlxId ilx.partOf: ;
ilxtr:hasIlxPreferredId ilx.partOf: .
partOf: a owl:ObjectProperty,
owl:TransitiveProperty ;
rdfs:label "part of" ;
rdfs:subPropertyOf overlaps: ;
owl:inverseOf hasPart: .
RO:0002433 a owl:ObjectProperty ;
rdfs:label "contributes to morphology of" ;
rdfs:subPropertyOf overlaps: .
### Annotation Properties
definition: a owl:AnnotationProperty ;
rdfs:label "definition" .
skos:hiddenLabel a owl:AnnotationProperty ;
rdfs:label "hidden label" .
skos:prefLabel a owl:AnnotationProperty ;
rdfs:label "preferred label" .
### Classes
AIBSTL:301021674 a owl:Class .
AIBSTL:543338518 a owl:Class .
atom:Label a owl:Class ;
rdfs:label "parcellation label" ;
NIFRID:synonym "Parcellation Label",
"parcellation term",
"term" ;
rdfs:subClassOf UBERON:0001062 .
BIRNLEX:1 a owl:Class ;
rdfs:label "Macromolecular complex" ;
ilxtr:hasExistingId BIRNLEX:1,
ILX:0106439 ;
ilxtr:hasExternalId BIRNLEX:1 ;
ilxtr:hasIlxId ILX:0106439 ;
ilxtr:hasIlxPreferredId BIRNLEX:1 .
CHEBI:5291 a owl:Class ;
rdfs:label "gelatin" ;
NIFRID:synonym "Gelatine" ;
rdfs:subClassOf CHEBI:60004,
PR:000050567 .
CHEBI:5686 a owl:Class ;
rdfs:label "heterocyclic compound" ;
NIFRID:synonym "compuesto heterociclico",
"compuestos heterociclicos",
"heterocycle",
"Heterocyclic compound",
"heterocyclic compounds" ;
rdfs:subClassOf CHEBI:33595 .
CHEBI:7872 a owl:Class ;
rdfs:label "oxytocin" ;
NIFRID:synonym "1-({(4R,7S,10S,13S,16S,19R)-19-amino-7-(2-amino-2-oxoethyl)-10-(3-amino-3-oxopropyl)-16-(4-hydroxybenzyl)-13-[(1S)-1-methylpropyl]-6,9,12,15,18-pentaoxo-1,2-dithia-5,8,11,14,17-pentaazacycloicosan-4-yl}carbonyl)-L-prolyl-L-leucylglycinamide",
"3-Isoleucine-8-leucine vasopressin",
"(1-Hemicystine)oxytocin",
"Endopituitrina",
"L-Cysteinyl-L-tyrosyl-L-isoleucyl-L-glutaminyl-L-asparaginyl-L-cysteinyl-L-prolyl-L-leucylglycinamide cyclic(1-6)-disulfide",
"Ocytocin",
"Orasthin",
"OT",
"oxitocina",
"OXT",
"Oxytocin",
"oxytocin",
"oxytocine",
"oxytocinum",
"Pitocin",
"Piton S",
"Syntocinon" ;
rdfs:subClassOf CHEBI:24533,
CHEBI:25905 .
CHEBI:9937 a owl:Class ;
rdfs:label "vasopressin" ;
NIFRID:synonym "ADH",
"Antidiuretic hormone",
"arginine vasopressin",
"argipressin",
"AVP",
"beta-Hypophamine",
"Inyectable de vasopresina",
"Solute injectable de vasopressine",
"Vasopressin",
"Vasopressini injectio",
"VP" ;
rdfs:subClassOf CHEBI:24533,
CHEBI:25905 .
CHEBI:15355 a owl:Class ;
rdfs:label "acetylcholine" ;
NIFRID:synonym "2-acetyloxy-N,N,N-trimethylethanaminium",
"ACETYLCHOLINE",
"Acetylcholine",
"acetylcholine",
"ACh",
"Azetylcholin",
"choline acetate",
"O-Acetylcholine" ;
rdfs:subClassOf CHEBI:35287,
CHEBI:47622 .
CHEBI:15428 a owl:Class ;
rdfs:label "glycine" ;
NIFRID:synonym "Aminoacetic acid",
"aminoacetic acid",
"Aminoessigsaeure",
"aminoethanoic acid",
"G",
"Gly",
"Glycin",
"GLYCINE",
"Glycine",
"glycine",
"Glycocoll",
"Glykokoll",
"Glyzin",
"H2N-CH2-COOH",
"Hgly",
"Leimzucker" ;
rdfs:subClassOf CHEBI:26650 .
CHEBI:15705 a owl:Class ;
rdfs:label "L-alpha-amino acid" ;
NIFRID:synonym "L-2-Amino acid",
"L-alpha-amino acid",
"L-alpha-amino acids",
"L-Amino acid" ;
rdfs:subClassOf CHEBI:33704 .
CHEBI:16015 a owl:Class ;
rdfs:label "L-glutamic acid" ;
NIFRID:synonym "(2S)-2-aminopentanedioic acid",
"(S)-2-aminopentanedioic acid",
"(S)-glutamic acid",
"acide glutamique",
"acido glutamico",
"acidum glutamicum",
"E",
"Glu",
"Glutamate",
"GLUTAMIC ACID",
"glutamic acid",
"L-Glu",
"L-Glutamic acid",
"L-glutamic acid",
"L-Glutaminic acid",
"L-Glutaminsaeure" ;
rdfs:subClassOf CHEBI:18237,
CHEBI:24318 .
CHEBI:16670 a owl:Class ;
rdfs:label "peptide" ;
NIFRID:synonym "Peptid",
"Peptide",
"peptides",
"peptido",
"peptidos" ;
rdfs:subClassOf CHEBI:37622,
CHEBI:50047 .
CHEBI:16865 a owl:Class ;
rdfs:label "gamma-aminobutyric acid" ;
NIFRID:synonym "4-Aminobutanoic acid",
"4-aminobutanoic acid",
"4-Aminobutyric acid",
"4-aminobutyric acid",
"4Abu",
"GABA",
"GAMMA-AMINO-BUTANOIC ACID",
"gamma-amino-n-butyric acid",
"gamma-aminobutanoic acid",
"gamma-Aminobuttersaeure",
"gamma-Aminobutyric acid",
"gamma-aminobutyric acid",
"omega-aminobutyric acid",
"piperidic acid",
"piperidinic acid" ;
rdfs:subClassOf CHEBI:25384,
CHEBI:33707 .
CHEBI:18237 a owl:Class ;
rdfs:label "glutamic acid" ;
NIFRID:synonym "2-Aminoglutaric acid",
"2-aminopentanedioic acid",
"DL-Glutamic acid",
"DL-Glutaminic acid",
"E",
"Glu",
"Glutamate",
"Glutamic acid",
"glutamic acid",
"Glutaminic acid",
"Glutaminsaeure" ;
rdfs:subClassOf CHEBI:26167,
CHEBI:33704 .
CHEBI:18243 a owl:Class ;
rdfs:label "dopamine" ;
NIFRID:synonym "2-(3,4-Dihydroxyphenyl)ethylamine",
"2-(3,4-dihydroxyphenyl)ethylamine",
"3,4-Dihydroxyphenethylamine",
"3-Hydroxytyramine",
"4-(2-Aminoethyl)-1,2-benzenediol",
"4-(2-aminoethyl)-1,2-benzenediol",
"4-(2-Aminoethyl)benzene-1,2-diol",
"4-(2-aminoethyl)benzene-1,2-diol",
"4-(2-aminoethyl)catechol",
"4-(2-aminoethyl)pyrocatechol",
"Deoxyepinephrine",
"Dopamin",
"dopamina",
"Dopamine",
"dopamine",
"Dopamine HCl",
"dopaminum",
"Dophamine",
"Hydroxytyramin",
"Intropin",
"Oxytyramine",
"Revimine" ;
rdfs:subClassOf CHEBI:33567,
NLXMOL:100306,
SAO:1456045859 .
CHEBI:22563 a owl:Class ;
rdfs:label "anion" ;
NIFRID:synonym "Anion",
"anion",
"Anionen",
"aniones",
"anions" ;
rdfs:subClassOf CHEBI:24870,
[ a owl:Restriction ;
owl:onProperty partOf: ;
owl:someValuesFrom CHEBI:24866 ] .
CHEBI:22660 a owl:Class ;
rdfs:label "aspartic acid" ;
NIFRID:synonym "2-aminobutanedioic acid",
"(+-)-Aspartic acid",
"(R,S)-Aspartic acid",
"Asp",
"Aspartic acid",
"aspartic acid",
"D",
"DL-Aminosuccinic acid",
"DL-Asparagic acid" ;
rdfs:subClassOf CHEBI:26167,
CHEBI:33704,
CHEBI:66873 .
CHEBI:22728 a owl:Class ;
rdfs:label "benzopyrrole" ;
NIFRID:synonym "benzopyrroles" ;
rdfs:subClassOf CHEBI:27171,
CHEBI:38101,
CHEBI:38180 .
CHEBI:23367 a owl:Class ;
rdfs:label "Molecular entity" ;
NIFRID:synonym "entidad molecular",
"entidades moleculares",
"entite moleculaire",
"molecular entities",
"molecular entity",
"molecule",
"molekulare Entitaet" ;
rdfs:subClassOf CHEBI:24431 ;
ilxtr:hasExistingId CHEBI:23367,
ILX:0107064 ;
ilxtr:hasExternalId CHEBI:23367 ;
ilxtr:hasIlxId ILX:0107064 ;
ilxtr:hasIlxPreferredId CHEBI:23367 .
CHEBI:23449 a owl:Class ;
rdfs:label "cyclic peptide" ;
NIFRID:synonym "cyclic peptides",
"Cyclopeptid",
"peptide cyclique",
"peptido ciclico",
"Zyklopeptid" ;
rdfs:subClassOf CHEBI:16670 .
CHEBI:23888 a owl:Class ;
rdfs:label "Drug" ;
ilxtr:hasExistingId CHEBI:23888,
ILX:0103576 ;
ilxtr:hasExternalId CHEBI:23888 ;
ilxtr:hasIlxId ILX:0103576 ;
ilxtr:hasIlxPreferredId CHEBI:23888 .
CHEBI:24318 a owl:Class ;
rdfs:label "glutamine family amino acid" ;
NIFRID:synonym "glutamine family amino acids" ;
rdfs:subClassOf CHEBI:15705,
CHEBI:83813 .
CHEBI:24431 a owl:Class ;
rdfs:label "chemical entity" ;
NIFRID:synonym "chemical entity" ;
rdfs:subClassOf BFO:0000040 .
CHEBI:24532 a owl:Class ;
rdfs:label "organic heterocyclic compound" ;
NIFRID:synonym "organic heterocycle",
"organic heterocyclic compounds" ;
rdfs:subClassOf CHEBI:5686,
CHEBI:33285,
CHEBI:33832 .
CHEBI:24533 a owl:Class ;
rdfs:label "heterodetic cyclic peptide" ;
NIFRID:synonym "heterodetic cyclic peptide",
"heterodetic cyclic peptides",
"peptide cyclique heterodetique",
"peptido ciclico heterodetico" ;
rdfs:subClassOf CHEBI:23449 .
CHEBI:24651 a owl:Class ;
rdfs:label "hydroxides" ;
rdfs:subClassOf CHEBI:25806,
CHEBI:33608,
CHEBI:37577 .
CHEBI:24828 a owl:Class ;
rdfs:label "indoles" ;
rdfs:subClassOf CHEBI:22728 .
CHEBI:24833 a owl:Class ;
rdfs:label "oxoacid" ;
NIFRID:synonym "oxacids",
"oxiacids",
"oxo acid",
"oxoacid",
"oxoacids",
"oxy-acids",
"oxyacids" ;
rdfs:subClassOf CHEBI:24651 .
CHEBI:24866 a owl:Class ;
rdfs:label "salt" ;
NIFRID:synonym "ionic compound",
"ionic compounds",
"sal",
"sales",
"salt",
"salts",
"Salz",
"Salze",
"sel",
"sels" ;
rdfs:subClassOf CHEBI:37577 .
CHEBI:24870 a owl:Class ;
rdfs:label "ion" ;
NIFRID:synonym "Ion",
"ion",
"Ionen",
"ionen",
"iones",
"ions" ;
rdfs:subClassOf CHEBI:23367 .
CHEBI:25367 a owl:Class ;
rdfs:label "molecule" ;
NIFRID:synonym "molecula",
"molecule",
"molecules",
"Molekuel",
"neutral molecular compounds" ;
rdfs:subClassOf CHEBI:36357 .
CHEBI:25375 a owl:Class ;
rdfs:label "monoamine molecular messenger" ;
NIFRID:synonym "monamines",
"monoamines" ;
rdfs:subClassOf CHEBI:63534 .
CHEBI:25384 a owl:Class ;
rdfs:label "monocarboxylic acid" ;
NIFRID:synonym "monocarboxylic acids" ;
rdfs:subClassOf CHEBI:33575 .
CHEBI:25696 a owl:Class ;
rdfs:label "organic anion" ;
NIFRID:synonym "organic anions" ;
rdfs:subClassOf CHEBI:22563,
CHEBI:25699 .
CHEBI:25697 a owl:Class ;
rdfs:label "organic cation" ;
NIFRID:synonym "organic cations" ;
rdfs:subClassOf CHEBI:25699,
CHEBI:36916 .
CHEBI:25699 a owl:Class ;
rdfs:label "organic ion" ;
NIFRID:synonym "organic ions" ;
rdfs:subClassOf CHEBI:24870,
CHEBI:50860 .
CHEBI:25741 a owl:Class ;
rdfs:label "oxide" ;
NIFRID:synonym "oxide",
"oxides" ;
rdfs:subClassOf CHEBI:25806,
CHEBI:37577 .
CHEBI:25806 a owl:Class ;
rdfs:label "oxygen molecular entity" ;
NIFRID:synonym "oxygen molecular entities",
"oxygen molecular entity" ;
rdfs:subClassOf CHEBI:33304 .
CHEBI:25905 a owl:Class ;
rdfs:label "peptide hormone" ;
NIFRID:synonym "peptide hormones",
"polypeptide hormone" ;
rdfs:subClassOf CHEBI:16670 .
CHEBI:26167 a owl:Class ;
rdfs:label "polar amino acid" ;
NIFRID:synonym "polar amino acid",
"polar amino acids",
"polar amino-acid",
"polar amino-acids" ;
rdfs:subClassOf CHEBI:33709 .
CHEBI:26469 a owl:Class ;
rdfs:label "quaternary nitrogen compound" ;
rdfs:subClassOf CHEBI:35352 .
CHEBI:26650 a owl:Class ;
rdfs:label "serine family amino acid" ;
NIFRID:synonym "3-phosphoglycerate family amino acid",
"3-phosphoglycerate family amino acids",
"serine family amino acids" ;
rdfs:subClassOf CHEBI:15705,
CHEBI:83813 .
CHEBI:27162 a owl:Class ;
rdfs:label "tryptamines" ;
rdfs:subClassOf CHEBI:24828 .
CHEBI:27171 a owl:Class ;
rdfs:label "organic heterobicyclic compound" ;
NIFRID:synonym "heterobicyclic compounds",
"organic heterobicyclic compounds" ;
rdfs:subClassOf CHEBI:33672,
CHEBI:38166 .
CHEBI:28790 a owl:Class ;
rdfs:label "serotonin" ;
NIFRID:synonym "3-(2-Aminoethyl)-1H-indol-5-ol",
"3-(2-aminoethyl)-1H-indol-5-ol",
"5-HT",
"5-Hydroxytryptamine",
"Enteramine",
"SEROTONIN",
"Serotonin",
"serotonine",
"thrombocytin",
"thrombotonin" ;
rdfs:subClassOf CHEBI:25375,
CHEBI:27162,
CHEBI:33853,
CHEBI:50994,
CHEBI:84729 .
CHEBI:29067 a owl:Class ;
rdfs:label "carboxylic acid anion" ;
NIFRID:synonym "a carboxylate",
"carboxylic acid anions",
"carboxylic anions" ;
rdfs:subClassOf CHEBI:25696,
CHEBI:35406 .
CHEBI:32952 a owl:Class ;
rdfs:label "amine" ;
NIFRID:synonym "Amin",
"Amine",
"amines",
"an amine",
"Substituted amine" ;
rdfs:subClassOf CHEBI:50047 .
CHEBI:32988 a owl:Class ;
rdfs:label "amide" ;
NIFRID:synonym "Amide",
"amides" ;
rdfs:subClassOf CHEBI:51143 .
CHEBI:33243 a owl:Class ;
rdfs:label "natural product" ;
rdfs:subClassOf CHEBI:50860 .
CHEBI:33256 a owl:Class ;
rdfs:label "primary amide" ;
NIFRID:synonym "primary amide",
"primary amides" ;
rdfs:subClassOf CHEBI:32988 .
CHEBI:33273 a owl:Class ;
rdfs:label "polyatomic anion" ;
NIFRID:synonym "polyatomic anions" ;
rdfs:subClassOf CHEBI:22563,
CHEBI:36358 .
CHEBI:33285 a owl:Class ;
rdfs:label "heteroorganic entity" ;
NIFRID:synonym "heteroorganic entities",
"organoelement compounds" ;
rdfs:subClassOf CHEBI:50860 .
CHEBI:33302 a owl:Class ;
rdfs:label "pnictogen molecular entity" ;
NIFRID:synonym "pnictogen molecular entities",
"pnictogen molecular entity" ;
rdfs:subClassOf CHEBI:33675 .
CHEBI:33304 a owl:Class ;
rdfs:label "chalcogen molecular entity" ;
NIFRID:synonym "chalcogen compounds",
"chalcogen molecular entities",
"chalcogen molecular entity" ;
rdfs:subClassOf CHEBI:33675 .
CHEBI:33308 a owl:Class ;
rdfs:label "carboxylic ester" ;
NIFRID:synonym "a carboxylic ester",
"carboxylic acid esters",
"Carboxylic ester",
"carboxylic esters" ;
rdfs:subClassOf CHEBI:35701,
CHEBI:36586 .
CHEBI:33558 a owl:Class ;
rdfs:label "alpha-amino-acid anion" ;
NIFRID:synonym "alpha-amino acid anions",
"alpha-amino-acid anion",
"alpha-amino-acid anions" ;
rdfs:subClassOf CHEBI:37022 .
CHEBI:33566 a owl:Class ;
rdfs:label "catechols" ;
NIFRID:synonym "1,2-benzenediols",
"a catechol",
"benzene-1,2-diols" ;
rdfs:subClassOf CHEBI:33570 .
CHEBI:33567 a owl:Class ;
rdfs:label "catecholamine" ;
NIFRID:synonym "Catecholamine",
"catecholamines" ;
rdfs:subClassOf CHEBI:25375,
CHEBI:33566 .
CHEBI:33570 a owl:Class ;
rdfs:label "benzenediols" ;
rdfs:subClassOf CHEBI:33853 .
CHEBI:33575 a owl:Class ;
rdfs:label "carboxylic acid" ;
NIFRID:synonym "acide carboxylique",
"acides carboxyliques",
"acido carboxilico",
"acidos carboxilicos",
"Carbonsaeure",
"Carbonsaeuren",
"carboxylic acid",
"carboxylic acids",
"Karbonsaeure",
"RC(=O)OH" ;
rdfs:subClassOf CHEBI:35605,
CHEBI:36586,
CHEBI:64709 .
CHEBI:33579 a owl:Class ;
rdfs:label "main group molecular entity" ;
NIFRID:synonym "main group compounds",
"main group molecular entities" ;
rdfs:subClassOf CHEBI:23367 .
CHEBI:33582 a owl:Class ;
rdfs:label "carbon group molecular entity" ;
NIFRID:synonym "carbon group molecular entities",
"carbon group molecular entity" ;
rdfs:subClassOf CHEBI:33675 .
CHEBI:33595 a owl:Class ;
rdfs:label "cyclic compound" ;
NIFRID:synonym "cyclic compounds" ;
rdfs:subClassOf CHEBI:25367 .
CHEBI:33608 a owl:Class ;
rdfs:label "hydrogen molecular entity" ;
NIFRID:synonym "hydrogen compounds",
"hydrogen molecular entities" ;
rdfs:subClassOf CHEBI:33674 .
CHEBI:33635 a owl:Class ;
rdfs:label "polycyclic compound" ;
NIFRID:synonym "polycyclic compounds" ;
rdfs:subClassOf CHEBI:33595 .
CHEBI:33636 a owl:Class ;
rdfs:label "bicyclic compound" ;
NIFRID:synonym "bicyclic compounds" ;
rdfs:subClassOf CHEBI:33595 .
CHEBI:33655 a owl:Class ;
rdfs:label "aromatic compound" ;
NIFRID:synonym "aromatic compounds",
"aromatic molecular entity",
"aromatics",
"aromatische Verbindungen" ;
rdfs:subClassOf CHEBI:33595 .
CHEBI:33659 a owl:Class ;
rdfs:label "organic aromatic compound" ;
NIFRID:synonym "organic aromatic compounds" ;
rdfs:subClassOf CHEBI:33655,
CHEBI:33832 .
CHEBI:33671 a owl:Class ;
rdfs:label "heteropolycyclic compound" ;
NIFRID:synonym "heteropolycyclic compounds",
"polyheterocyclic compounds" ;
rdfs:subClassOf CHEBI:5686,
CHEBI:33635 .
CHEBI:33672 a owl:Class ;
rdfs:label "heterobicyclic compound" ;
NIFRID:synonym "heterobicyclic compounds" ;
rdfs:subClassOf CHEBI:5686,
CHEBI:33636 .
CHEBI:33674 a owl:Class ;
rdfs:label "s-block molecular entity" ;
NIFRID:synonym "s-block compounds",
"s-block molecular entities",
"s-block molecular entity" ;
rdfs:subClassOf CHEBI:33579 .
CHEBI:33675 a owl:Class ;
rdfs:label "p-block molecular entity" ;
NIFRID:synonym "p-block compounds",
"p-block molecular entities",
"p-block molecular entitiy" ;
rdfs:subClassOf CHEBI:33579 .
CHEBI:33694 a owl:Class ;
rdfs:label "biomacromolecule" ;
NIFRID:synonym "biomacromolecules",
"biopolymer",
"Biopolymere",
"biopolymers" ;
rdfs:subClassOf CHEBI:33839,
CHEBI:50860 .
CHEBI:33695 a owl:Class ;
rdfs:label "information biomacromolecule" ;
NIFRID:synonym "genetically encoded biomacromolecules",
"genetically encoded biopolymers",
"information biomacromolecules",
"information biopolymers",
"information macromolecule",
"information macromolecules" ;
rdfs:subClassOf CHEBI:33694 .
CHEBI:33702 a owl:Class ;
rdfs:label "polyatomic cation" ;
NIFRID:synonym "polyatomic cations" ;
rdfs:subClassOf CHEBI:36358,
CHEBI:36916 .
CHEBI:33704 a owl:Class ;
rdfs:label "alpha-amino acid" ;
NIFRID:synonym "alpha-amino acid",
"alpha-amino acids",
"alpha-amino carboxylic acids",
"Amino acid",
"Amino acids" ;
rdfs:subClassOf CHEBI:33709 .
CHEBI:33707 a owl:Class ;
rdfs:label "gamma-amino acid" ;
NIFRID:synonym "gamma-amino acid",
"gamma-amino acids" ;
rdfs:subClassOf CHEBI:83820 .
CHEBI:33709 a owl:Class ;
rdfs:label "amino acid" ;
NIFRID:synonym "amino acids",
"Aminocarbonsaeure",
"Aminokarbonsaeure",
"Aminosaeure" ;
rdfs:subClassOf CHEBI:33575,
CHEBI:50047 .
CHEBI:33822 a owl:Class ;
rdfs:label "organic hydroxy compound" ;
NIFRID:synonym "hydroxy compounds",
"organic alcohol",
"organic hydroxy compounds" ;
rdfs:subClassOf CHEBI:24651,
CHEBI:50860 .
CHEBI:33832 a owl:Class ;
rdfs:label "organic cyclic compound" ;
NIFRID:synonym "organic cyclic compounds" ;
rdfs:subClassOf CHEBI:33595,
CHEBI:72695 .
CHEBI:33833 a owl:Class ;
rdfs:label "heteroarene" ;
NIFRID:synonym "hetarenes",
"heteroarenes" ;
rdfs:subClassOf CHEBI:24532,
CHEBI:33659 .
CHEBI:33839 a owl:Class ;
rdfs:label "macromolecule" ;
NIFRID:synonym "macromolecule",
"macromolecules",
"polymer",
"polymer molecule",
"polymers" ;
rdfs:subClassOf CHEBI:36357,
[ a owl:Restriction ;
owl:onProperty partOf: ;
owl:someValuesFrom CHEBI:60027 ] .
CHEBI:33853 a owl:Class ;
rdfs:label "phenols" ;
NIFRID:synonym "a phenol",
"arenols",
"Aryl alcohol",
"phenols" ;
rdfs:subClassOf CHEBI:33659,
CHEBI:33822 .
CHEBI:35267 a owl:Class ;
rdfs:label "quaternary ammonium ion" ;
NIFRID:synonym "a quaternary ammonium",
"Quaternary amine",
"quaternary ammonium ion",
"quaternary ammonium ions" ;
rdfs:subClassOf CHEBI:25697,
CHEBI:35274,
[ a owl:Restriction ;
owl:onProperty partOf: ;
owl:someValuesFrom CHEBI:26469 ] .
CHEBI:35274 a owl:Class ;
rdfs:label "ammonium ion derivative" ;
NIFRID:synonym "ammonium ion derivatives",
"azanium ion derivative",
"azanium ion derivatives" ;
rdfs:subClassOf CHEBI:33702,
CHEBI:51143,
[ a owl:Restriction ;
owl:onProperty partOf: ;
owl:someValuesFrom CHEBI:35276 ] .
CHEBI:35276 a owl:Class ;
rdfs:label "ammonium compound" ;
NIFRID:synonym "ammonium compounds",
"azanium compounds" ;
rdfs:subClassOf CHEBI:51143 .
CHEBI:35287 a owl:Class ;
rdfs:label "acylcholine" ;
NIFRID:synonym "acylcholines",
"an acylcholine" ;
rdfs:subClassOf CHEBI:35267 .
CHEBI:35352 a owl:Class ;
rdfs:label "organonitrogen compound" ;
NIFRID:synonym "organonitrogen compounds",
"organonitrogens" ;
rdfs:subClassOf CHEBI:33285,
CHEBI:51143 .
CHEBI:35406 a owl:Class ;
rdfs:label "oxoanion" ;
NIFRID:synonym "oxoacid anions",
"oxoanion",
"oxoanions" ;
rdfs:subClassOf CHEBI:25741,
CHEBI:33273 .
CHEBI:35605 a owl:Class ;
rdfs:label "carbon oxoacid" ;
NIFRID:synonym "carbon oxoacids",
"oxoacids of carbon" ;
rdfs:subClassOf CHEBI:24833,
CHEBI:36963 .
CHEBI:35692 a owl:Class ;
rdfs:label "dicarboxylic acid" ;
NIFRID:synonym "Dicarboxylic acid",
"dicarboxylic acids" ;
rdfs:subClassOf CHEBI:33575,
CHEBI:131927 .
CHEBI:35693 a owl:Class ;
rdfs:label "dicarboxylic acid anion" ;
NIFRID:synonym "dicarboxylic acid anion",
"dicarboxylic acid anions" ;
rdfs:subClassOf CHEBI:29067 .
CHEBI:35701 a owl:Class ;
rdfs:label "ester" ;
NIFRID:synonym "Ester",
"Esters",
"esters" ;
rdfs:subClassOf CHEBI:36963 .
CHEBI:36080 a owl:Class ;
rdfs:label "protein" ;
NIFRID:synonym "proteins" ;
rdfs:subClassOf CHEBI:33695,
PR:000018263,
PR:000050567,
[ a owl:Restriction ;
owl:onProperty partOf: ;
owl:someValuesFrom CHEBI:5291 ] .
CHEBI:36357 a owl:Class ;
rdfs:label "Polyatomic entity" ;
NIFRID:synonym "polyatomic entities" ;
rdfs:subClassOf CHEBI:23367 .
CHEBI:36358 a owl:Class ;
rdfs:label "polyatomic ion" ;
NIFRID:synonym "polyatomic ions" ;
rdfs:subClassOf CHEBI:24870,
CHEBI:36357 .
CHEBI:36586 a owl:Class ;
rdfs:label "carbonyl compound" ;
NIFRID:synonym "carbonyl compounds" ;
rdfs:subClassOf CHEBI:36587,
CHEBI:36963 .
CHEBI:36587 a owl:Class ;
rdfs:label "organic oxo compound" ;
NIFRID:synonym "organic oxo compounds",
"oxo compounds" ;
rdfs:subClassOf CHEBI:72695 .
CHEBI:36916 a owl:Class ;
rdfs:label "cation" ;
NIFRID:synonym "Cation",
"cation",
"cationes",
"cations",
"Kation",
"Kationen" ;
rdfs:subClassOf CHEBI:24870,
[ a owl:Restriction ;
owl:onProperty partOf: ;
owl:someValuesFrom CHEBI:24866 ] .
CHEBI:36962 a owl:Class ;
rdfs:label "organochalcogen compound" ;
NIFRID:synonym "organochalcogen compound",
"organochalcogen compounds" ;
rdfs:subClassOf CHEBI:33285,
CHEBI:33304 .
CHEBI:36963 a owl:Class ;
rdfs:label "organooxygen compound" ;
NIFRID:synonym "organooxygen compound",