pymetadata 0.4.0__py2.py3-none-any.whl → 0.4.2__py2.py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Potentially problematic release.
This version of pymetadata might be problematic. Click here for more details.
- pymetadata/__init__.py +2 -1
- pymetadata/cache.py +1 -0
- pymetadata/chebi.py +1 -0
- pymetadata/console.py +1 -0
- pymetadata/core/annotation.py +1 -0
- pymetadata/core/creator.py +1 -0
- pymetadata/core/synonym.py +1 -0
- pymetadata/core/xref.py +1 -0
- pymetadata/examples/omex_example.py +1 -0
- pymetadata/identifiers/registry.py +2 -16
- pymetadata/log.py +1 -0
- pymetadata/metadata/kisao.py +10 -0
- pymetadata/omex.py +1 -1
- pymetadata/omex_v2.py +1 -0
- pymetadata/ontologies/ols.py +6 -9
- pymetadata/ontologies/ontology.py +2 -1
- pymetadata/resources/identifiers_registry.json +1082 -554
- pymetadata/unichem.py +7 -5
- {pymetadata-0.4.0.dist-info → pymetadata-0.4.2.dist-info}/METADATA +30 -39
- pymetadata-0.4.2.dist-info/RECORD +35 -0
- {pymetadata-0.4.0.dist-info → pymetadata-0.4.2.dist-info}/WHEEL +1 -1
- pymetadata-0.4.0.dist-info/RECORD +0 -35
- {pymetadata-0.4.0.dist-info → pymetadata-0.4.2.dist-info}/LICENSE +0 -0
- {pymetadata-0.4.0.dist-info → pymetadata-0.4.2.dist-info}/top_level.txt +0 -0
- {pymetadata-0.4.0.dist-info → pymetadata-0.4.2.dist-info}/zip-safe +0 -0
|
@@ -47,6 +47,150 @@
|
|
|
47
47
|
"deprecated": true,
|
|
48
48
|
"deprecationDate": "2023-01-05T20:09:01.370+0000"
|
|
49
49
|
},
|
|
50
|
+
"refseq.gcf": {
|
|
51
|
+
"id": 3719,
|
|
52
|
+
"prefix": "refseq.gcf",
|
|
53
|
+
"name": "Genome assembly database - RefSeq accessions",
|
|
54
|
+
"pattern": "^GCF_[0-9]{9}(\\.[0-9]+)?$",
|
|
55
|
+
"namespaceEmbeddedInLui": false,
|
|
56
|
+
"description": "The genome assembly database contains detailed information about genome assemblies for eukaryota, bacteria and archaea. The scope of the genome collections database RefSeq accessions does not extend to viroids and bacteriophage.",
|
|
57
|
+
"mirId": "MIR:00001030",
|
|
58
|
+
"resources": [
|
|
59
|
+
{
|
|
60
|
+
"id": 3720,
|
|
61
|
+
"providerCode": "ncbi",
|
|
62
|
+
"name": "National Center for Biotechnology Information",
|
|
63
|
+
"urlPattern": "https://www.ncbi.nlm.nih.gov/datasets/genome/{$id}",
|
|
64
|
+
"mirId": "MIR:00001029",
|
|
65
|
+
"description": "The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information.",
|
|
66
|
+
"official": true,
|
|
67
|
+
"sampleId": "GCF_000001405",
|
|
68
|
+
"resourceHomeUrl": "https://www.ncbi.nlm.nih.gov/",
|
|
69
|
+
"institution": {
|
|
70
|
+
"id": 26,
|
|
71
|
+
"name": "National Center for Biotechnology Information",
|
|
72
|
+
"homeUrl": "https://www.ncbi.nlm.nih.gov/",
|
|
73
|
+
"description": "The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information.",
|
|
74
|
+
"rorId": "https://ror.org/02meqm098",
|
|
75
|
+
"location": {
|
|
76
|
+
"countryCode": "US",
|
|
77
|
+
"countryName": "United States"
|
|
78
|
+
}
|
|
79
|
+
},
|
|
80
|
+
"location": {
|
|
81
|
+
"countryCode": "US",
|
|
82
|
+
"countryName": "United States"
|
|
83
|
+
},
|
|
84
|
+
"deprecated": false,
|
|
85
|
+
"deprecationDate": null,
|
|
86
|
+
"protectedUrls": false,
|
|
87
|
+
"renderProtectedLanding": false,
|
|
88
|
+
"authHelpUrl": null,
|
|
89
|
+
"authHelpDescription": null
|
|
90
|
+
}
|
|
91
|
+
],
|
|
92
|
+
"created": "2023-10-30T09:39:26.272+0000",
|
|
93
|
+
"modified": "2023-10-30T10:34:56.198+0000",
|
|
94
|
+
"sampleId": "GCF_000001405",
|
|
95
|
+
"deprecated": false,
|
|
96
|
+
"deprecationDate": null
|
|
97
|
+
},
|
|
98
|
+
"synapse": {
|
|
99
|
+
"id": 3808,
|
|
100
|
+
"prefix": "synapse",
|
|
101
|
+
"name": "Synapse Data Repository",
|
|
102
|
+
"pattern": "[0-9]*\\.*[0-9]*",
|
|
103
|
+
"namespaceEmbeddedInLui": false,
|
|
104
|
+
"description": "Synapse is a collaborative, open-source research platform that allows teams to share data, track analyses, and collaborate.",
|
|
105
|
+
"mirId": "MIR:00001043",
|
|
106
|
+
"resources": [
|
|
107
|
+
{
|
|
108
|
+
"id": 3809,
|
|
109
|
+
"providerCode": "synapse",
|
|
110
|
+
"name": "Sage Bionetworks",
|
|
111
|
+
"urlPattern": "https://repo-prod.prod.sagebase.org/ga4gh/drs/v1/objects/syn{$id}",
|
|
112
|
+
"mirId": "MIR:00001042",
|
|
113
|
+
"description": "Sage Bionetworks is a trusted leader in data sharing and reuse, enabling a rapid acceleration in biomedical discoveries and the transformation of medicine.",
|
|
114
|
+
"official": true,
|
|
115
|
+
"sampleId": "41455251.1",
|
|
116
|
+
"resourceHomeUrl": "https://sagebionetworks.org",
|
|
117
|
+
"institution": {
|
|
118
|
+
"id": 3807,
|
|
119
|
+
"name": "Sage Bionetworks",
|
|
120
|
+
"homeUrl": "https://www.sagebionetworks.org",
|
|
121
|
+
"description": "Sage Bionetworks is a trusted leader in data sharing and reuse, enabling a rapid acceleration in biomedical discoveries and the transformation of medicine.",
|
|
122
|
+
"rorId": null,
|
|
123
|
+
"location": {
|
|
124
|
+
"countryCode": "US",
|
|
125
|
+
"countryName": "United States"
|
|
126
|
+
}
|
|
127
|
+
},
|
|
128
|
+
"location": {
|
|
129
|
+
"countryCode": "US",
|
|
130
|
+
"countryName": "United States"
|
|
131
|
+
},
|
|
132
|
+
"deprecated": false,
|
|
133
|
+
"deprecationDate": null,
|
|
134
|
+
"protectedUrls": false,
|
|
135
|
+
"renderProtectedLanding": false,
|
|
136
|
+
"authHelpUrl": null,
|
|
137
|
+
"authHelpDescription": null
|
|
138
|
+
}
|
|
139
|
+
],
|
|
140
|
+
"created": "2024-03-20T10:13:27.272+0000",
|
|
141
|
+
"modified": "2024-03-20T10:13:27.272+0000",
|
|
142
|
+
"sampleId": "41455251.1",
|
|
143
|
+
"deprecated": false,
|
|
144
|
+
"deprecationDate": null
|
|
145
|
+
},
|
|
146
|
+
"cheminf": {
|
|
147
|
+
"id": 3819,
|
|
148
|
+
"prefix": "cheminf",
|
|
149
|
+
"name": "Chemical Information Ontology",
|
|
150
|
+
"pattern": "^CHEMINF:\\d+$",
|
|
151
|
+
"namespaceEmbeddedInLui": true,
|
|
152
|
+
"description": "The chemical information ontology (cheminf) describes information entities about chemical entities. It provides qualitative and quantitative attributes to richly describe chemicals.",
|
|
153
|
+
"mirId": "MIR:00001045",
|
|
154
|
+
"resources": [
|
|
155
|
+
{
|
|
156
|
+
"id": 3820,
|
|
157
|
+
"providerCode": "ols",
|
|
158
|
+
"name": "CHEMINF via OLS",
|
|
159
|
+
"urlPattern": "https://www.ebi.ac.uk/ols4/ontologies/cheminf/classes?obo_id=CHEMINF:{$id}",
|
|
160
|
+
"mirId": "MIR:00001044",
|
|
161
|
+
"description": "The chemical information ontology (cheminf) describes information entities about chemical entities. It provides qualitative and quantitative attributes to richly describe chemicals.",
|
|
162
|
+
"official": true,
|
|
163
|
+
"sampleId": "000306",
|
|
164
|
+
"resourceHomeUrl": "https://www.ebi.ac.uk/ols4/ontologies/cheminf",
|
|
165
|
+
"institution": {
|
|
166
|
+
"id": 2,
|
|
167
|
+
"name": "European Bioinformatics Institute",
|
|
168
|
+
"homeUrl": "https://www.ebi.ac.uk",
|
|
169
|
+
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
170
|
+
"rorId": "https://ror.org/02catss52",
|
|
171
|
+
"location": {
|
|
172
|
+
"countryCode": "GB",
|
|
173
|
+
"countryName": "United Kingdom"
|
|
174
|
+
}
|
|
175
|
+
},
|
|
176
|
+
"location": {
|
|
177
|
+
"countryCode": "GB",
|
|
178
|
+
"countryName": "United Kingdom"
|
|
179
|
+
},
|
|
180
|
+
"deprecated": false,
|
|
181
|
+
"deprecationDate": null,
|
|
182
|
+
"protectedUrls": false,
|
|
183
|
+
"renderProtectedLanding": false,
|
|
184
|
+
"authHelpUrl": null,
|
|
185
|
+
"authHelpDescription": null
|
|
186
|
+
}
|
|
187
|
+
],
|
|
188
|
+
"created": "2024-03-20T10:24:50.346+0000",
|
|
189
|
+
"modified": "2024-03-20T10:29:26.220+0000",
|
|
190
|
+
"sampleId": "000306",
|
|
191
|
+
"deprecated": false,
|
|
192
|
+
"deprecationDate": null
|
|
193
|
+
},
|
|
50
194
|
"bgee.stage": {
|
|
51
195
|
"id": 1211,
|
|
52
196
|
"prefix": "bgee.stage",
|
|
@@ -95,6 +239,102 @@
|
|
|
95
239
|
"deprecated": true,
|
|
96
240
|
"deprecationDate": "2023-07-04T10:26:40.148+0000"
|
|
97
241
|
},
|
|
242
|
+
"maxo": {
|
|
243
|
+
"id": 3723,
|
|
244
|
+
"prefix": "maxo",
|
|
245
|
+
"name": "Medical Action Ontology",
|
|
246
|
+
"pattern": "\\d{7}",
|
|
247
|
+
"namespaceEmbeddedInLui": false,
|
|
248
|
+
"description": "An ontology to represent medically relevant actions, procedures, therapies, interventions, and recommendations.",
|
|
249
|
+
"mirId": "MIR:00001032",
|
|
250
|
+
"resources": [
|
|
251
|
+
{
|
|
252
|
+
"id": 3724,
|
|
253
|
+
"providerCode": "ols",
|
|
254
|
+
"name": "MAXO via OLS",
|
|
255
|
+
"urlPattern": "https://www.ebi.ac.uk/ols4/ontologies/maxo/terms?obo_id=MAXO:{$id}",
|
|
256
|
+
"mirId": "MIR:00001031",
|
|
257
|
+
"description": "The Ontology Lookup Service (OLS) is a repository for biomedical ontologies that aims to provide a single point of access to the latest ontology versions. You can browse the ontologies through the website as well as programmatically via the OLS API. OLS is developed and maintained by the\u2009Samples, Phenotypes and Ontologies Team (SPOT)\u2009 at\u2009EMBL-EBI.",
|
|
258
|
+
"official": true,
|
|
259
|
+
"sampleId": "0001073",
|
|
260
|
+
"resourceHomeUrl": "https://www.ebi.ac.uk/ols4/ontologies/maxo",
|
|
261
|
+
"institution": {
|
|
262
|
+
"id": 3722,
|
|
263
|
+
"name": "Monarch Initiative",
|
|
264
|
+
"homeUrl": "https://monarchinitiative.org/",
|
|
265
|
+
"description": "The Monarch Initiative is an integrative data and analytic platform connecting phenotypes to genotypes across species, bridging basic and applied research with semantics-based analysis. We have created or currently contribute to many essential bio-ontologies that together enable sophisticated and semantically integrated computational analysis across gene, genotype, variant, disease, and phenotype data. ",
|
|
266
|
+
"rorId": null,
|
|
267
|
+
"location": {
|
|
268
|
+
"countryCode": "US",
|
|
269
|
+
"countryName": "United States"
|
|
270
|
+
}
|
|
271
|
+
},
|
|
272
|
+
"location": {
|
|
273
|
+
"countryCode": "US",
|
|
274
|
+
"countryName": "United States"
|
|
275
|
+
},
|
|
276
|
+
"deprecated": false,
|
|
277
|
+
"deprecationDate": null,
|
|
278
|
+
"protectedUrls": false,
|
|
279
|
+
"renderProtectedLanding": false,
|
|
280
|
+
"authHelpUrl": null,
|
|
281
|
+
"authHelpDescription": null
|
|
282
|
+
}
|
|
283
|
+
],
|
|
284
|
+
"created": "2023-10-30T09:40:47.492+0000",
|
|
285
|
+
"modified": "2023-10-30T09:40:47.492+0000",
|
|
286
|
+
"sampleId": "0001073",
|
|
287
|
+
"deprecated": false,
|
|
288
|
+
"deprecationDate": null
|
|
289
|
+
},
|
|
290
|
+
"opl": {
|
|
291
|
+
"id": 3827,
|
|
292
|
+
"prefix": "opl",
|
|
293
|
+
"name": "Ontology for Parasite Lifecycle",
|
|
294
|
+
"pattern": "^OPL:\\d+$",
|
|
295
|
+
"namespaceEmbeddedInLui": true,
|
|
296
|
+
"description": "The Ontology for Parasite Lifecycle (OPL) models the life cycle stage details of various parasites, including Trypanosoma sp., Leishmania major, and Plasmodium sp., etc.",
|
|
297
|
+
"mirId": "MIR:00001047",
|
|
298
|
+
"resources": [
|
|
299
|
+
{
|
|
300
|
+
"id": 3828,
|
|
301
|
+
"providerCode": "ols",
|
|
302
|
+
"name": "OPL via OLS",
|
|
303
|
+
"urlPattern": "https://www.ebi.ac.uk/ols4/ontologies/opl/classes?obo_id=OPL:{$id}",
|
|
304
|
+
"mirId": "MIR:00001046",
|
|
305
|
+
"description": "The Ontology for Parasite Lifecycle (OPL) models the life cycle stage details of various parasites, including Trypanosoma sp., Leishmania major, and Plasmodium sp., etc",
|
|
306
|
+
"official": true,
|
|
307
|
+
"sampleId": "0000134",
|
|
308
|
+
"resourceHomeUrl": "https://www.ebi.ac.uk/ols4/ontologies/opl",
|
|
309
|
+
"institution": {
|
|
310
|
+
"id": 2,
|
|
311
|
+
"name": "European Bioinformatics Institute",
|
|
312
|
+
"homeUrl": "https://www.ebi.ac.uk",
|
|
313
|
+
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
314
|
+
"rorId": "https://ror.org/02catss52",
|
|
315
|
+
"location": {
|
|
316
|
+
"countryCode": "GB",
|
|
317
|
+
"countryName": "United Kingdom"
|
|
318
|
+
}
|
|
319
|
+
},
|
|
320
|
+
"location": {
|
|
321
|
+
"countryCode": "GB",
|
|
322
|
+
"countryName": "United Kingdom"
|
|
323
|
+
},
|
|
324
|
+
"deprecated": false,
|
|
325
|
+
"deprecationDate": null,
|
|
326
|
+
"protectedUrls": false,
|
|
327
|
+
"renderProtectedLanding": false,
|
|
328
|
+
"authHelpUrl": null,
|
|
329
|
+
"authHelpDescription": null
|
|
330
|
+
}
|
|
331
|
+
],
|
|
332
|
+
"created": "2024-03-20T10:39:56.678+0000",
|
|
333
|
+
"modified": "2024-03-20T10:39:56.678+0000",
|
|
334
|
+
"sampleId": "0000134",
|
|
335
|
+
"deprecated": false,
|
|
336
|
+
"deprecationDate": null
|
|
337
|
+
},
|
|
98
338
|
"signaling-gateway": {
|
|
99
339
|
"id": 169,
|
|
100
340
|
"prefix": "signaling-gateway",
|
|
@@ -191,6 +431,54 @@
|
|
|
191
431
|
"deprecated": true,
|
|
192
432
|
"deprecationDate": "2023-07-04T10:26:56.707+0000"
|
|
193
433
|
},
|
|
434
|
+
"ncbidrs": {
|
|
435
|
+
"id": 3730,
|
|
436
|
+
"prefix": "ncbidrs",
|
|
437
|
+
"name": "NCBI Data Repository Service",
|
|
438
|
+
"pattern": "^[0-9a-fA-F]{32}$",
|
|
439
|
+
"namespaceEmbeddedInLui": false,
|
|
440
|
+
"description": "This is the namespace for the archive of sequence and other files provided by NCBI e.g. in SRA and dbGaP. These files are related to objects in the sequencing data model managed under the insdc.sra namespace. ",
|
|
441
|
+
"mirId": "MIR:00001034",
|
|
442
|
+
"resources": [
|
|
443
|
+
{
|
|
444
|
+
"id": 3731,
|
|
445
|
+
"providerCode": "ncbi",
|
|
446
|
+
"name": "National Center for Biotechnology Information",
|
|
447
|
+
"urlPattern": "https://locate.be-md.ncbi.nlm.nih.gov/ga4gh/drs/v1/objects/{$id}",
|
|
448
|
+
"mirId": "MIR:00001033",
|
|
449
|
+
"description": "The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information.",
|
|
450
|
+
"official": true,
|
|
451
|
+
"sampleId": "72ff6ff882ec447f12df018e6183de59",
|
|
452
|
+
"resourceHomeUrl": "https://www.ncbi.nlm.nih.gov/",
|
|
453
|
+
"institution": {
|
|
454
|
+
"id": 26,
|
|
455
|
+
"name": "National Center for Biotechnology Information",
|
|
456
|
+
"homeUrl": "https://www.ncbi.nlm.nih.gov/",
|
|
457
|
+
"description": "The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information.",
|
|
458
|
+
"rorId": "https://ror.org/02meqm098",
|
|
459
|
+
"location": {
|
|
460
|
+
"countryCode": "US",
|
|
461
|
+
"countryName": "United States"
|
|
462
|
+
}
|
|
463
|
+
},
|
|
464
|
+
"location": {
|
|
465
|
+
"countryCode": "US",
|
|
466
|
+
"countryName": "United States"
|
|
467
|
+
},
|
|
468
|
+
"deprecated": false,
|
|
469
|
+
"deprecationDate": null,
|
|
470
|
+
"protectedUrls": false,
|
|
471
|
+
"renderProtectedLanding": false,
|
|
472
|
+
"authHelpUrl": null,
|
|
473
|
+
"authHelpDescription": null
|
|
474
|
+
}
|
|
475
|
+
],
|
|
476
|
+
"created": "2023-10-31T16:13:48.191+0000",
|
|
477
|
+
"modified": "2023-10-31T16:13:48.191+0000",
|
|
478
|
+
"sampleId": "72ff6ff882ec447f12df018e6183de59",
|
|
479
|
+
"deprecated": false,
|
|
480
|
+
"deprecationDate": null
|
|
481
|
+
},
|
|
194
482
|
"miriam.collection": {
|
|
195
483
|
"id": 41,
|
|
196
484
|
"prefix": "miriam.collection",
|
|
@@ -234,11 +522,59 @@
|
|
|
234
522
|
}
|
|
235
523
|
],
|
|
236
524
|
"created": "2019-06-11T14:15:31.442+0000",
|
|
237
|
-
"modified": "
|
|
525
|
+
"modified": "2024-02-06T14:56:58.330+0000",
|
|
238
526
|
"sampleId": "MIR:00000008",
|
|
239
527
|
"deprecated": true,
|
|
240
528
|
"deprecationDate": "2020-06-04T11:17:21.453+0000"
|
|
241
529
|
},
|
|
530
|
+
"mcro": {
|
|
531
|
+
"id": 3832,
|
|
532
|
+
"prefix": "mcro",
|
|
533
|
+
"name": "Model Card Ontology",
|
|
534
|
+
"pattern": "^MCRO:\\d+$",
|
|
535
|
+
"namespaceEmbeddedInLui": true,
|
|
536
|
+
"description": "An ontology representing the model card structure, he aim of this work is to describe machine learning models to communicate information about specific details about the model (trade offs, intended users, licensing, etc.). ",
|
|
537
|
+
"mirId": "MIR:00001049",
|
|
538
|
+
"resources": [
|
|
539
|
+
{
|
|
540
|
+
"id": 3833,
|
|
541
|
+
"providerCode": "ols",
|
|
542
|
+
"name": "MCRO via OLS",
|
|
543
|
+
"urlPattern": "https://www.ebi.ac.uk/ols4/ontologies/mcro/classes?obo_id=MCRO:{$id}",
|
|
544
|
+
"mirId": "MIR:00001048",
|
|
545
|
+
"description": "ontology modeling the model card report for machine learning model assests",
|
|
546
|
+
"official": true,
|
|
547
|
+
"sampleId": "0000027",
|
|
548
|
+
"resourceHomeUrl": "https://www.ebi.ac.uk/ols4/ontologies/mcro",
|
|
549
|
+
"institution": {
|
|
550
|
+
"id": 2,
|
|
551
|
+
"name": "European Bioinformatics Institute",
|
|
552
|
+
"homeUrl": "https://www.ebi.ac.uk",
|
|
553
|
+
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
554
|
+
"rorId": "https://ror.org/02catss52",
|
|
555
|
+
"location": {
|
|
556
|
+
"countryCode": "GB",
|
|
557
|
+
"countryName": "United Kingdom"
|
|
558
|
+
}
|
|
559
|
+
},
|
|
560
|
+
"location": {
|
|
561
|
+
"countryCode": "GB",
|
|
562
|
+
"countryName": "United Kingdom"
|
|
563
|
+
},
|
|
564
|
+
"deprecated": false,
|
|
565
|
+
"deprecationDate": null,
|
|
566
|
+
"protectedUrls": false,
|
|
567
|
+
"renderProtectedLanding": false,
|
|
568
|
+
"authHelpUrl": null,
|
|
569
|
+
"authHelpDescription": null
|
|
570
|
+
}
|
|
571
|
+
],
|
|
572
|
+
"created": "2024-03-20T10:56:06.644+0000",
|
|
573
|
+
"modified": "2024-03-20T10:56:06.644+0000",
|
|
574
|
+
"sampleId": "0000027",
|
|
575
|
+
"deprecated": false,
|
|
576
|
+
"deprecationDate": null
|
|
577
|
+
},
|
|
242
578
|
"eco": {
|
|
243
579
|
"id": 197,
|
|
244
580
|
"prefix": "eco",
|
|
@@ -319,6 +655,102 @@
|
|
|
319
655
|
"deprecated": false,
|
|
320
656
|
"deprecationDate": null
|
|
321
657
|
},
|
|
658
|
+
"tricdb": {
|
|
659
|
+
"id": 3756,
|
|
660
|
+
"prefix": "tricdb",
|
|
661
|
+
"name": "tricdb",
|
|
662
|
+
"pattern": "^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$",
|
|
663
|
+
"namespaceEmbeddedInLui": false,
|
|
664
|
+
"description": "Tri\u00a9DB is a newly developed integrated platform functioning as a knowledge base and reporting system for cancer precision medicine. This platform harmonizes and mines cancer-related data from various aspects, presenting them on a centralized platform with enhanced accessibility, rich annotations, and robust analysis capabilities. The development of Tri\u00a9DB is aimed at meeting the needs of a broad range of researchers, thereby propelling both foundational and translational research in cancer precision medicine.",
|
|
665
|
+
"mirId": "MIR:00001036",
|
|
666
|
+
"resources": [
|
|
667
|
+
{
|
|
668
|
+
"id": 3757,
|
|
669
|
+
"providerCode": "id",
|
|
670
|
+
"name": "BaoLab",
|
|
671
|
+
"urlPattern": "http://biomeddb.org/Disease/Details?DISEASEID={$id}",
|
|
672
|
+
"mirId": "MIR:00001035",
|
|
673
|
+
"description": "Professor Bao's Laboratory at the School of Life Sciences, Hubei University",
|
|
674
|
+
"official": true,
|
|
675
|
+
"sampleId": "1eec8393-e598-41ed-9d8b-6d5b0db94470",
|
|
676
|
+
"resourceHomeUrl": "http://www.biomeddb.org/",
|
|
677
|
+
"institution": {
|
|
678
|
+
"id": 3755,
|
|
679
|
+
"name": "Hubei University",
|
|
680
|
+
"homeUrl": "http://eng.hubu.edu.cn/",
|
|
681
|
+
"description": "Hubei University, located in Wuhan, capital city of Central China\u2019s Hubei Province, is a key comprehensive university jointly administered by Hubei Provincial Government and China\u2019s Ministry of Education, covering arts, history, philosophy, science, engineering, economics, law, management, education, agriculture and medicine, with the disciplines of Material Science and Chemistry ranking top 1% in the world ESI.",
|
|
682
|
+
"rorId": null,
|
|
683
|
+
"location": {
|
|
684
|
+
"countryCode": "CN",
|
|
685
|
+
"countryName": "China"
|
|
686
|
+
}
|
|
687
|
+
},
|
|
688
|
+
"location": {
|
|
689
|
+
"countryCode": "CN",
|
|
690
|
+
"countryName": "China"
|
|
691
|
+
},
|
|
692
|
+
"deprecated": false,
|
|
693
|
+
"deprecationDate": null,
|
|
694
|
+
"protectedUrls": false,
|
|
695
|
+
"renderProtectedLanding": false,
|
|
696
|
+
"authHelpUrl": null,
|
|
697
|
+
"authHelpDescription": null
|
|
698
|
+
}
|
|
699
|
+
],
|
|
700
|
+
"created": "2023-11-27T09:57:23.517+0000",
|
|
701
|
+
"modified": "2023-11-27T09:57:23.517+0000",
|
|
702
|
+
"sampleId": "1eec8393-e598-41ed-9d8b-6d5b0db94470",
|
|
703
|
+
"deprecated": false,
|
|
704
|
+
"deprecationDate": null
|
|
705
|
+
},
|
|
706
|
+
"stato": {
|
|
707
|
+
"id": 3842,
|
|
708
|
+
"prefix": "stato",
|
|
709
|
+
"name": "Statistical Ontology",
|
|
710
|
+
"pattern": "^STATO:\\d+$",
|
|
711
|
+
"namespaceEmbeddedInLui": true,
|
|
712
|
+
"description": "STATO is the statistical methods ontology. It contains concepts and properties related to statistical methods, probability distributions and other concepts related to statistical analysis, including relationships to study designs and plots.",
|
|
713
|
+
"mirId": "MIR:00001051",
|
|
714
|
+
"resources": [
|
|
715
|
+
{
|
|
716
|
+
"id": 3843,
|
|
717
|
+
"providerCode": "ols",
|
|
718
|
+
"name": "European Bioinformatics Institute",
|
|
719
|
+
"urlPattern": "https://www.ebi.ac.uk/ols4/ontologies/stato/classes?obo_id=STATO:{$id}",
|
|
720
|
+
"mirId": "MIR:00001050",
|
|
721
|
+
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
722
|
+
"official": true,
|
|
723
|
+
"sampleId": "0000138",
|
|
724
|
+
"resourceHomeUrl": "https://www.ebi.ac.uk",
|
|
725
|
+
"institution": {
|
|
726
|
+
"id": 2,
|
|
727
|
+
"name": "European Bioinformatics Institute",
|
|
728
|
+
"homeUrl": "https://www.ebi.ac.uk",
|
|
729
|
+
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
730
|
+
"rorId": "https://ror.org/02catss52",
|
|
731
|
+
"location": {
|
|
732
|
+
"countryCode": "GB",
|
|
733
|
+
"countryName": "United Kingdom"
|
|
734
|
+
}
|
|
735
|
+
},
|
|
736
|
+
"location": {
|
|
737
|
+
"countryCode": "GB",
|
|
738
|
+
"countryName": "United Kingdom"
|
|
739
|
+
},
|
|
740
|
+
"deprecated": false,
|
|
741
|
+
"deprecationDate": null,
|
|
742
|
+
"protectedUrls": false,
|
|
743
|
+
"renderProtectedLanding": false,
|
|
744
|
+
"authHelpUrl": null,
|
|
745
|
+
"authHelpDescription": null
|
|
746
|
+
}
|
|
747
|
+
],
|
|
748
|
+
"created": "2024-03-20T11:10:30.918+0000",
|
|
749
|
+
"modified": "2024-03-20T11:10:30.918+0000",
|
|
750
|
+
"sampleId": "0000138",
|
|
751
|
+
"deprecated": false,
|
|
752
|
+
"deprecationDate": null
|
|
753
|
+
},
|
|
322
754
|
"macie": {
|
|
323
755
|
"id": 261,
|
|
324
756
|
"prefix": "macie",
|
|
@@ -361,45 +793,541 @@
|
|
|
361
793
|
"authHelpDescription": null
|
|
362
794
|
}
|
|
363
795
|
],
|
|
364
|
-
"created": "2019-06-11T14:15:53.388+0000",
|
|
365
|
-
"modified": "2019-06-11T14:15:53.388+0000",
|
|
366
|
-
"sampleId": "M0001",
|
|
796
|
+
"created": "2019-06-11T14:15:53.388+0000",
|
|
797
|
+
"modified": "2019-06-11T14:15:53.388+0000",
|
|
798
|
+
"sampleId": "M0001",
|
|
799
|
+
"deprecated": false,
|
|
800
|
+
"deprecationDate": null
|
|
801
|
+
},
|
|
802
|
+
"maggot": {
|
|
803
|
+
"id": 3759,
|
|
804
|
+
"prefix": "maggot",
|
|
805
|
+
"name": "Maggot",
|
|
806
|
+
"pattern": "^[A-Za-z0-9]+$",
|
|
807
|
+
"namespaceEmbeddedInLui": false,
|
|
808
|
+
"description": "Sharing descriptive Metadata is the first essential step towards Open Scientific Data. With this in mind, Maggot was specifically designed to annotate datasets by creating a metadata file to attach to the storage space. Indeed, it allows users to easily add descriptive metadata to datasets produced within a collective of people (research unit, platform, multi-partner project, etc.). This approach fits perfectly into a data management plan as it addresses the issues of data organization and documentation, data storage and frictionless metadata sharing within this same collective and beyond.",
|
|
809
|
+
"mirId": "MIR:00001038",
|
|
810
|
+
"resources": [
|
|
811
|
+
{
|
|
812
|
+
"id": 3760,
|
|
813
|
+
"providerCode": "maggot",
|
|
814
|
+
"name": "Bordeaux Metabolome",
|
|
815
|
+
"urlPattern": "https://pmb-bordeaux.fr/maggot/metadata/{$id}",
|
|
816
|
+
"mirId": "MIR:00001037",
|
|
817
|
+
"description": "Bordeaux Metabolome Facility provides equipments and expertise for the study of metabolome, lipidome and metabolic fluxes.",
|
|
818
|
+
"official": true,
|
|
819
|
+
"sampleId": "frim1",
|
|
820
|
+
"resourceHomeUrl": "https://eng-bfp.bordeaux-aquitaine.hub.inrae.fr/resources/metabolome-platform",
|
|
821
|
+
"institution": {
|
|
822
|
+
"id": 2292,
|
|
823
|
+
"name": "National Research Institute for Agriculture, Food and Environment",
|
|
824
|
+
"homeUrl": "https://www.inrae.fr/",
|
|
825
|
+
"description": "INRAE is France's new National Research Institute for Agriculture, Food and Environment, created on January 1, 2020, It was formed by the merger of INRA, the National Institute for Agricultural Research, and IRSTEA, the National Research Institute of Science and Technology for the Environment and Agriculture.",
|
|
826
|
+
"rorId": "https://ror.org/003vg9w96",
|
|
827
|
+
"location": {
|
|
828
|
+
"countryCode": "FR",
|
|
829
|
+
"countryName": "France"
|
|
830
|
+
}
|
|
831
|
+
},
|
|
832
|
+
"location": {
|
|
833
|
+
"countryCode": "FR",
|
|
834
|
+
"countryName": "France"
|
|
835
|
+
},
|
|
836
|
+
"deprecated": false,
|
|
837
|
+
"deprecationDate": null,
|
|
838
|
+
"protectedUrls": false,
|
|
839
|
+
"renderProtectedLanding": false,
|
|
840
|
+
"authHelpUrl": null,
|
|
841
|
+
"authHelpDescription": null
|
|
842
|
+
}
|
|
843
|
+
],
|
|
844
|
+
"created": "2023-11-27T10:19:40.971+0000",
|
|
845
|
+
"modified": "2023-11-27T10:19:40.971+0000",
|
|
846
|
+
"sampleId": "frim1",
|
|
847
|
+
"deprecated": false,
|
|
848
|
+
"deprecationDate": null
|
|
849
|
+
},
|
|
850
|
+
"edam": {
|
|
851
|
+
"id": 575,
|
|
852
|
+
"prefix": "edam",
|
|
853
|
+
"name": "EDAM Ontology",
|
|
854
|
+
"pattern": "^(data|topic|operation|format)\\_\\d{4}$",
|
|
855
|
+
"namespaceEmbeddedInLui": false,
|
|
856
|
+
"description": "EDAM is an ontology of general bioinformatics concepts, including topics, data types, formats, identifiers and operations. EDAM provides a controlled vocabulary for the description, in semantic terms, of things such as: web services (e.g. WSDL files), applications, tool collections and packages, work-benches and workflow software, databases and ontologies, XSD data schema and data objects, data syntax and file formats, web portals and pages, resource catalogues and documents (such as scientific publications).",
|
|
857
|
+
"mirId": "MIR:00000189",
|
|
858
|
+
"resources": [
|
|
859
|
+
{
|
|
860
|
+
"id": 576,
|
|
861
|
+
"providerCode": "bptl",
|
|
862
|
+
"name": "EDAM through BioPortal",
|
|
863
|
+
"urlPattern": "http://purl.bioontology.org/ontology/EDAM/{$id}",
|
|
864
|
+
"mirId": "MIR:00100536",
|
|
865
|
+
"description": "EDAM through BioPortal",
|
|
866
|
+
"official": false,
|
|
867
|
+
"sampleId": "data_1664",
|
|
868
|
+
"resourceHomeUrl": "http://bioportal.bioontology.org/ontologies/EDAM",
|
|
869
|
+
"institution": {
|
|
870
|
+
"id": 5,
|
|
871
|
+
"name": "National Center for Biomedical Ontology, Stanford",
|
|
872
|
+
"homeUrl": "https://ncbo.bioontology.org/",
|
|
873
|
+
"description": "The goal of the National Center for Biomedical Ontology is to support biomedical researchers in their knowledge-intensive work, by providing online tools and a Web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. A major focus of our work involves the use of biomedical ontologies to aid in the management and analysis of data derived from complex experiments.",
|
|
874
|
+
"rorId": null,
|
|
875
|
+
"location": {
|
|
876
|
+
"countryCode": "US",
|
|
877
|
+
"countryName": "United States"
|
|
878
|
+
}
|
|
879
|
+
},
|
|
880
|
+
"location": {
|
|
881
|
+
"countryCode": "US",
|
|
882
|
+
"countryName": "United States"
|
|
883
|
+
},
|
|
884
|
+
"deprecated": false,
|
|
885
|
+
"deprecationDate": null,
|
|
886
|
+
"protectedUrls": false,
|
|
887
|
+
"renderProtectedLanding": false,
|
|
888
|
+
"authHelpUrl": null,
|
|
889
|
+
"authHelpDescription": null
|
|
890
|
+
},
|
|
891
|
+
{
|
|
892
|
+
"id": 577,
|
|
893
|
+
"providerCode": "ols",
|
|
894
|
+
"name": "EDAM through OLS",
|
|
895
|
+
"urlPattern": "https://www.ebi.ac.uk/ols4/ontologies/edam/terms?short_form={$id}",
|
|
896
|
+
"mirId": "MIR:00100762",
|
|
897
|
+
"description": "EDAM through OLS",
|
|
898
|
+
"official": false,
|
|
899
|
+
"sampleId": "data_1664",
|
|
900
|
+
"resourceHomeUrl": "https://www.ebi.ac.uk/ols4/ontologies/edam",
|
|
901
|
+
"institution": {
|
|
902
|
+
"id": 2,
|
|
903
|
+
"name": "European Bioinformatics Institute",
|
|
904
|
+
"homeUrl": "https://www.ebi.ac.uk",
|
|
905
|
+
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
906
|
+
"rorId": "https://ror.org/02catss52",
|
|
907
|
+
"location": {
|
|
908
|
+
"countryCode": "GB",
|
|
909
|
+
"countryName": "United Kingdom"
|
|
910
|
+
}
|
|
911
|
+
},
|
|
912
|
+
"location": {
|
|
913
|
+
"countryCode": "GB",
|
|
914
|
+
"countryName": "United Kingdom"
|
|
915
|
+
},
|
|
916
|
+
"deprecated": false,
|
|
917
|
+
"deprecationDate": null,
|
|
918
|
+
"protectedUrls": false,
|
|
919
|
+
"renderProtectedLanding": false,
|
|
920
|
+
"authHelpUrl": null,
|
|
921
|
+
"authHelpDescription": null
|
|
922
|
+
}
|
|
923
|
+
],
|
|
924
|
+
"created": "2019-06-11T14:16:22.318+0000",
|
|
925
|
+
"modified": "2024-03-20T11:53:50.927+0000",
|
|
926
|
+
"sampleId": "data_1664",
|
|
927
|
+
"deprecated": false,
|
|
928
|
+
"deprecationDate": null
|
|
929
|
+
},
|
|
930
|
+
"neuromorpho": {
|
|
931
|
+
"id": 312,
|
|
932
|
+
"prefix": "neuromorpho",
|
|
933
|
+
"name": "NeuroMorpho",
|
|
934
|
+
"pattern": "^\\w+$",
|
|
935
|
+
"namespaceEmbeddedInLui": false,
|
|
936
|
+
"description": "NeuroMorpho.Org is a centrally curated inventory of digitally reconstructed neurons.",
|
|
937
|
+
"mirId": "MIR:00000095",
|
|
938
|
+
"resources": [
|
|
939
|
+
{
|
|
940
|
+
"id": 314,
|
|
941
|
+
"providerCode": "CURATOR_REVIEW",
|
|
942
|
+
"name": "NeuroMorpho",
|
|
943
|
+
"urlPattern": "http://neuromorpho.org/neuron_info.jsp?neuron_name={$id}",
|
|
944
|
+
"mirId": "MIR:00100126",
|
|
945
|
+
"description": "NeuroMorpho",
|
|
946
|
+
"official": false,
|
|
947
|
+
"sampleId": "Rosa2",
|
|
948
|
+
"resourceHomeUrl": "http://neuromorpho.org/index.jsp",
|
|
949
|
+
"institution": {
|
|
950
|
+
"id": 313,
|
|
951
|
+
"name": "Krasnow Institute, Virginia",
|
|
952
|
+
"homeUrl": "https://catalog.gmu.edu/archives/2019-2020/research/krasnow-institute-advanced-study/",
|
|
953
|
+
"description": "The Krasnow Institute for Advanced Study seeks to expand the understanding of mind, brain, and intelligence by conducting research at the intersection of the separate fields of cognitive psychology, neurobiology, and the computer-driven study of artificial intelligence and complex adaptive systems, including social systems. These separate disciplines increasingly overlap and promise progressively deeper insight into human thought processes. The institute also examines how new insights from cognitive science research can be applied for human benefit in the areas of mental health, neurological disease, education, computer design, and social system analysis.",
|
|
954
|
+
"rorId": null,
|
|
955
|
+
"location": {
|
|
956
|
+
"countryCode": "US",
|
|
957
|
+
"countryName": "United States"
|
|
958
|
+
}
|
|
959
|
+
},
|
|
960
|
+
"location": {
|
|
961
|
+
"countryCode": "US",
|
|
962
|
+
"countryName": "United States"
|
|
963
|
+
},
|
|
964
|
+
"deprecated": false,
|
|
965
|
+
"deprecationDate": null,
|
|
966
|
+
"protectedUrls": false,
|
|
967
|
+
"renderProtectedLanding": false,
|
|
968
|
+
"authHelpUrl": null,
|
|
969
|
+
"authHelpDescription": null
|
|
970
|
+
}
|
|
971
|
+
],
|
|
972
|
+
"created": "2019-06-11T14:15:58.342+0000",
|
|
973
|
+
"modified": "2019-06-11T14:15:58.342+0000",
|
|
974
|
+
"sampleId": "Rosa2",
|
|
975
|
+
"deprecated": false,
|
|
976
|
+
"deprecationDate": null
|
|
977
|
+
},
|
|
978
|
+
"hco": {
|
|
979
|
+
"id": 3781,
|
|
980
|
+
"prefix": "hco",
|
|
981
|
+
"name": "Human Chromosome Ontology",
|
|
982
|
+
"pattern": "^.+$",
|
|
983
|
+
"namespaceEmbeddedInLui": false,
|
|
984
|
+
"description": "The Human Chromosome Ontology (HCO) provides simple and stable URIs for human reference genome versions to semantically identify human chromosomes.",
|
|
985
|
+
"mirId": "MIR:00001040",
|
|
986
|
+
"resources": [
|
|
987
|
+
{
|
|
988
|
+
"id": 3782,
|
|
989
|
+
"providerCode": "dbcls",
|
|
990
|
+
"name": "Database Center for Life Science, Kashiwa, Chiba, Japan",
|
|
991
|
+
"urlPattern": "http://biohackathon.org/resource/hco#{$id}",
|
|
992
|
+
"mirId": "MIR:00001039",
|
|
993
|
+
"description": "Database Center for Life Science (DBCLS) is a part of Research Organization of Information and Systems (ROIS) and has been developing new technologies, services and standards for integrating biological databases, which include those developed and maintained in Japan as well as world-renowned databases.",
|
|
994
|
+
"official": true,
|
|
995
|
+
"sampleId": "MT",
|
|
996
|
+
"resourceHomeUrl": "https://dbcls.rois.ac.jp/",
|
|
997
|
+
"institution": {
|
|
998
|
+
"id": 3526,
|
|
999
|
+
"name": "Database Center for Life Science, Kashiwa, Chiba, Japan",
|
|
1000
|
+
"homeUrl": "https://dbcls.rois.ac.jp/index-en.html",
|
|
1001
|
+
"description": "Database Center for Life Science (DBCLS) is a part of Research Organization of Information and Systems (ROIS) and has been developing new technologies, services and standards for integrating biological databases, which include those developed and maintained in Japan as well as world-renowned databases.",
|
|
1002
|
+
"rorId": null,
|
|
1003
|
+
"location": {
|
|
1004
|
+
"countryCode": "JP",
|
|
1005
|
+
"countryName": "Japan"
|
|
1006
|
+
}
|
|
1007
|
+
},
|
|
1008
|
+
"location": {
|
|
1009
|
+
"countryCode": "JP",
|
|
1010
|
+
"countryName": "Japan"
|
|
1011
|
+
},
|
|
1012
|
+
"deprecated": false,
|
|
1013
|
+
"deprecationDate": null,
|
|
1014
|
+
"protectedUrls": false,
|
|
1015
|
+
"renderProtectedLanding": false,
|
|
1016
|
+
"authHelpUrl": null,
|
|
1017
|
+
"authHelpDescription": null
|
|
1018
|
+
}
|
|
1019
|
+
],
|
|
1020
|
+
"created": "2024-01-05T09:25:24.380+0000",
|
|
1021
|
+
"modified": "2024-01-05T09:25:24.380+0000",
|
|
1022
|
+
"sampleId": "MT",
|
|
1023
|
+
"deprecated": false,
|
|
1024
|
+
"deprecationDate": null
|
|
1025
|
+
},
|
|
1026
|
+
"obcs": {
|
|
1027
|
+
"id": 3852,
|
|
1028
|
+
"prefix": "obcs",
|
|
1029
|
+
"name": " Ontology of Biological and Clinical Statistics",
|
|
1030
|
+
"pattern": "^OBCS:\\d+$",
|
|
1031
|
+
"namespaceEmbeddedInLui": true,
|
|
1032
|
+
"description": "OBCS stands for the Ontology of Biological and Clinical Statistics. OBCS is an ontology in the domain of biological and clinical statistics. It is aligned with the Basic Formal Ontology (BFO) and the Ontology for Biomedical Investigations (OBI)",
|
|
1033
|
+
"mirId": "MIR:00001053",
|
|
1034
|
+
"resources": [
|
|
1035
|
+
{
|
|
1036
|
+
"id": 3853,
|
|
1037
|
+
"providerCode": "ols",
|
|
1038
|
+
"name": "OBCS via OLS",
|
|
1039
|
+
"urlPattern": "https://www.ebi.ac.uk/ols4/ontologies/obcs/classes?obo_id=OBCS:{$id}",
|
|
1040
|
+
"mirId": "MIR:00001052",
|
|
1041
|
+
"description": "OBCS stands for the Ontology of Biological and Clinical Statistics",
|
|
1042
|
+
"official": true,
|
|
1043
|
+
"sampleId": "0000086",
|
|
1044
|
+
"resourceHomeUrl": "https://www.ebi.ac.uk/ols4/ontologies/obcs",
|
|
1045
|
+
"institution": {
|
|
1046
|
+
"id": 2,
|
|
1047
|
+
"name": "European Bioinformatics Institute",
|
|
1048
|
+
"homeUrl": "https://www.ebi.ac.uk",
|
|
1049
|
+
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
1050
|
+
"rorId": "https://ror.org/02catss52",
|
|
1051
|
+
"location": {
|
|
1052
|
+
"countryCode": "GB",
|
|
1053
|
+
"countryName": "United Kingdom"
|
|
1054
|
+
}
|
|
1055
|
+
},
|
|
1056
|
+
"location": {
|
|
1057
|
+
"countryCode": "GB",
|
|
1058
|
+
"countryName": "United Kingdom"
|
|
1059
|
+
},
|
|
1060
|
+
"deprecated": false,
|
|
1061
|
+
"deprecationDate": null,
|
|
1062
|
+
"protectedUrls": false,
|
|
1063
|
+
"renderProtectedLanding": false,
|
|
1064
|
+
"authHelpUrl": null,
|
|
1065
|
+
"authHelpDescription": null
|
|
1066
|
+
}
|
|
1067
|
+
],
|
|
1068
|
+
"created": "2024-03-21T14:43:39.901+0000",
|
|
1069
|
+
"modified": "2024-03-21T14:43:39.901+0000",
|
|
1070
|
+
"sampleId": "0000086",
|
|
1071
|
+
"deprecated": false,
|
|
1072
|
+
"deprecationDate": null
|
|
1073
|
+
},
|
|
1074
|
+
"glycomedb": {
|
|
1075
|
+
"id": 363,
|
|
1076
|
+
"prefix": "glycomedb",
|
|
1077
|
+
"name": "GlycomeDB",
|
|
1078
|
+
"pattern": "^\\w+$",
|
|
1079
|
+
"namespaceEmbeddedInLui": false,
|
|
1080
|
+
"description": "GlycomeDB is the result of a systematic data integration effort, and provides an overview of all carbohydrate structures available in public databases, as well as cross-links.",
|
|
1081
|
+
"mirId": "MIR:00000114",
|
|
1082
|
+
"resources": [
|
|
1083
|
+
{
|
|
1084
|
+
"id": 365,
|
|
1085
|
+
"providerCode": "CURATOR_REVIEW",
|
|
1086
|
+
"name": "GlycomeDB carbohydrate structure database",
|
|
1087
|
+
"urlPattern": "https://glytoucan.org/Structures/Glycans/{$id}",
|
|
1088
|
+
"mirId": "MIR:00100147",
|
|
1089
|
+
"description": "GlycomeDB carbohydrate structure database",
|
|
1090
|
+
"official": false,
|
|
1091
|
+
"sampleId": "G77500AY",
|
|
1092
|
+
"resourceHomeUrl": "https://glytoucan.org/",
|
|
1093
|
+
"institution": {
|
|
1094
|
+
"id": 843,
|
|
1095
|
+
"name": "DKFZ TP3, Heidelberg",
|
|
1096
|
+
"homeUrl": "http://www.dkfz.de/en/index.html",
|
|
1097
|
+
"description": "To perform research into cancer is the task of the German Cancer Research Center (Deutsches Krebsforschungszentrum, DKFZ) according to its statutes. DKFZ is the largest biomedical research institute in Germany and a member of the Helmholtz Association of National Research Centers. In more than 100 divisions and research groups, our more than 3,000 employees, of which more than 1,200 are scientists, are investigating the mechanisms of cancer, are identifying cancer risk factors and are trying to find strategies to prevent people from getting cancer.They are developing novel approaches to make tumor diagnosis more precise and treatment of cancer patients more successful.",
|
|
1098
|
+
"rorId": "https://ror.org/04cdgtt98",
|
|
1099
|
+
"location": {
|
|
1100
|
+
"countryCode": "DE",
|
|
1101
|
+
"countryName": "Germany"
|
|
1102
|
+
}
|
|
1103
|
+
},
|
|
1104
|
+
"location": {
|
|
1105
|
+
"countryCode": "DE",
|
|
1106
|
+
"countryName": "Germany"
|
|
1107
|
+
},
|
|
1108
|
+
"deprecated": false,
|
|
1109
|
+
"deprecationDate": null,
|
|
1110
|
+
"protectedUrls": false,
|
|
1111
|
+
"renderProtectedLanding": false,
|
|
1112
|
+
"authHelpUrl": null,
|
|
1113
|
+
"authHelpDescription": null
|
|
1114
|
+
}
|
|
1115
|
+
],
|
|
1116
|
+
"created": "2019-06-11T14:16:03.253+0000",
|
|
1117
|
+
"modified": "2019-06-11T14:16:03.253+0000",
|
|
1118
|
+
"sampleId": "G77500AY",
|
|
1119
|
+
"deprecated": false,
|
|
1120
|
+
"deprecationDate": null
|
|
1121
|
+
},
|
|
1122
|
+
"dg.4825": {
|
|
1123
|
+
"id": 3142,
|
|
1124
|
+
"prefix": "dg.4825",
|
|
1125
|
+
"name": "ACCOuNT Data Commons",
|
|
1126
|
+
"pattern": "[0-9a-fA-F]{8}\\-[0-9a-fA-F]{4}\\-[0-9a-fA-F]{4}\\-[0-9a-fA-F]{4}\\-[0-9a-fA-F]{12}",
|
|
1127
|
+
"namespaceEmbeddedInLui": false,
|
|
1128
|
+
"description": "This website provides a centralized, cloud-based discovery portal for African American pharmacogenomics data and aims to accelerate discovery of novel genetic variants in African Americans related to clinically actionable cardiovascular phenotypes.",
|
|
1129
|
+
"mirId": "MIR:00001019",
|
|
1130
|
+
"resources": [
|
|
1131
|
+
{
|
|
1132
|
+
"id": 3143,
|
|
1133
|
+
"providerCode": "dg.4825",
|
|
1134
|
+
"name": "ACCOuNT Data Commons",
|
|
1135
|
+
"urlPattern": "https://gen3.datacommons.io/ga4gh/drs/v1/objects/dg.4825/{$id}",
|
|
1136
|
+
"mirId": "MIR:00001013",
|
|
1137
|
+
"description": "This website provides a centralized, cloud-based discovery portal for African American pharmacogenomics data and aims to accelerate discovery of novel genetic variants in African Americans related to clinically actionable cardiovascular phenotypes.",
|
|
1138
|
+
"official": true,
|
|
1139
|
+
"sampleId": "e322c7d9-a0fa-4a1d-83f0-0f06bda87fe8",
|
|
1140
|
+
"resourceHomeUrl": "https://gen3.datacommons.io",
|
|
1141
|
+
"institution": {
|
|
1142
|
+
"id": 2820,
|
|
1143
|
+
"name": "Open Commons Consortium",
|
|
1144
|
+
"homeUrl": "https://www.occ-data.org/",
|
|
1145
|
+
"description": "The Open Commons Consortium (OCC) manages and operates cloud computing, data commons, and data ecosystems to advance scientific, medical, health care and environmental research for human and societal impact.",
|
|
1146
|
+
"rorId": null,
|
|
1147
|
+
"location": {
|
|
1148
|
+
"countryCode": "US",
|
|
1149
|
+
"countryName": "United States"
|
|
1150
|
+
}
|
|
1151
|
+
},
|
|
1152
|
+
"location": {
|
|
1153
|
+
"countryCode": "US",
|
|
1154
|
+
"countryName": "United States"
|
|
1155
|
+
},
|
|
1156
|
+
"deprecated": false,
|
|
1157
|
+
"deprecationDate": null,
|
|
1158
|
+
"protectedUrls": false,
|
|
1159
|
+
"renderProtectedLanding": false,
|
|
1160
|
+
"authHelpUrl": null,
|
|
1161
|
+
"authHelpDescription": null
|
|
1162
|
+
}
|
|
1163
|
+
],
|
|
1164
|
+
"created": "2022-02-27T20:30:53.595+0000",
|
|
1165
|
+
"modified": "2024-01-09T16:21:12.604+0000",
|
|
1166
|
+
"sampleId": "e322c7d9-a0fa-4a1d-83f0-0f06bda87fe8",
|
|
1167
|
+
"deprecated": false,
|
|
1168
|
+
"deprecationDate": null
|
|
1169
|
+
},
|
|
1170
|
+
"mzspec": {
|
|
1171
|
+
"id": 1735,
|
|
1172
|
+
"prefix": "mzspec",
|
|
1173
|
+
"name": "Universal Spectrum Identifier",
|
|
1174
|
+
"pattern": "^mzspec:.+$",
|
|
1175
|
+
"namespaceEmbeddedInLui": true,
|
|
1176
|
+
"description": "The Universal Spectrum Identifier (USI) is a compound identifier that provides an abstract path to refer to a single spectrum generated by a mass spectrometer, and potentially the ion that is thought to have produced it.",
|
|
1177
|
+
"mirId": "MIR:00000625",
|
|
1178
|
+
"resources": [
|
|
1179
|
+
{
|
|
1180
|
+
"id": 2394,
|
|
1181
|
+
"providerCode": "pc",
|
|
1182
|
+
"name": "Institute for Systems Biology, Seattle, USA",
|
|
1183
|
+
"urlPattern": "http://proteomecentral.proteomexchange.org/usi/?usi=mzspec:{$id}",
|
|
1184
|
+
"mirId": "MIR:00000771",
|
|
1185
|
+
"description": "Institute for Systems Biology (ISB), Seattle, USA is an independent research institute focusing on systems biology.",
|
|
1186
|
+
"official": true,
|
|
1187
|
+
"sampleId": "PXD000865:00603_F01_P004608_B00F_A00_R1:scan:14453:SSLLDVLAAR/2",
|
|
1188
|
+
"resourceHomeUrl": "http://proteomecentral.proteomexchange.org/",
|
|
1189
|
+
"institution": {
|
|
1190
|
+
"id": 193,
|
|
1191
|
+
"name": "Institute for Systems Biology",
|
|
1192
|
+
"homeUrl": "https://isbscience.org/",
|
|
1193
|
+
"description": "ISB was created in 2000 as the first-ever institute dedicated to systems biology.",
|
|
1194
|
+
"rorId": "https://ror.org/02tpgw303",
|
|
1195
|
+
"location": {
|
|
1196
|
+
"countryCode": "US",
|
|
1197
|
+
"countryName": "United States"
|
|
1198
|
+
}
|
|
1199
|
+
},
|
|
1200
|
+
"location": {
|
|
1201
|
+
"countryCode": "US",
|
|
1202
|
+
"countryName": "United States"
|
|
1203
|
+
},
|
|
1204
|
+
"deprecated": false,
|
|
1205
|
+
"deprecationDate": null,
|
|
1206
|
+
"protectedUrls": false,
|
|
1207
|
+
"renderProtectedLanding": false,
|
|
1208
|
+
"authHelpUrl": null,
|
|
1209
|
+
"authHelpDescription": null
|
|
1210
|
+
},
|
|
1211
|
+
{
|
|
1212
|
+
"id": 1737,
|
|
1213
|
+
"providerCode": "CURATOR_REVIEW",
|
|
1214
|
+
"name": "Universal Spectrum Identifier through Peptide Atlas",
|
|
1215
|
+
"urlPattern": "https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/ShowObservedSpectrum?usi=mzspec:{$id}",
|
|
1216
|
+
"mirId": "MIR:00100829",
|
|
1217
|
+
"description": "Universal Spectrum Identifier through Peptide Atlas",
|
|
1218
|
+
"official": false,
|
|
1219
|
+
"sampleId": "PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2",
|
|
1220
|
+
"resourceHomeUrl": "https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/ShowObservedSpectrum",
|
|
1221
|
+
"institution": {
|
|
1222
|
+
"id": 193,
|
|
1223
|
+
"name": "Institute for Systems Biology",
|
|
1224
|
+
"homeUrl": "https://isbscience.org/",
|
|
1225
|
+
"description": "ISB was created in 2000 as the first-ever institute dedicated to systems biology.",
|
|
1226
|
+
"rorId": "https://ror.org/02tpgw303",
|
|
1227
|
+
"location": {
|
|
1228
|
+
"countryCode": "US",
|
|
1229
|
+
"countryName": "United States"
|
|
1230
|
+
}
|
|
1231
|
+
},
|
|
1232
|
+
"location": {
|
|
1233
|
+
"countryCode": "US",
|
|
1234
|
+
"countryName": "United States"
|
|
1235
|
+
},
|
|
1236
|
+
"deprecated": false,
|
|
1237
|
+
"deprecationDate": null,
|
|
1238
|
+
"protectedUrls": false,
|
|
1239
|
+
"renderProtectedLanding": false,
|
|
1240
|
+
"authHelpUrl": null,
|
|
1241
|
+
"authHelpDescription": null
|
|
1242
|
+
}
|
|
1243
|
+
],
|
|
1244
|
+
"created": "2019-06-11T14:18:05.468+0000",
|
|
1245
|
+
"modified": "2024-03-22T09:42:52.380+0000",
|
|
1246
|
+
"sampleId": "PXD002255:ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2",
|
|
1247
|
+
"deprecated": false,
|
|
1248
|
+
"deprecationDate": null
|
|
1249
|
+
},
|
|
1250
|
+
"vectorbase": {
|
|
1251
|
+
"id": 687,
|
|
1252
|
+
"prefix": "vectorbase",
|
|
1253
|
+
"name": "VectorBase",
|
|
1254
|
+
"pattern": "^\\D{4}\\d{6}(\\-\\D{2})?$",
|
|
1255
|
+
"namespaceEmbeddedInLui": false,
|
|
1256
|
+
"description": "VectorBase is part of the VEuPathDB, a NIAID-funded Bioinformatic Resource Center focused on invertebrate vectors of human pathogens and related species of interest. Currently, VectorBase contains genome information for approximately 80 organisms: mosquitoes, bed bugs, biting midges, ticks, tsetse flies, mites, sand flies, house flies, body lice, stable flies, kissing bugs, and a snail which is an intermediate host.",
|
|
1257
|
+
"mirId": "MIR:00000232",
|
|
1258
|
+
"resources": [
|
|
1259
|
+
{
|
|
1260
|
+
"id": 688,
|
|
1261
|
+
"providerCode": "ebi",
|
|
1262
|
+
"name": "Vectorbase at EMBL-EBI",
|
|
1263
|
+
"urlPattern": "https://vectorbase.org/gene/{$id}",
|
|
1264
|
+
"mirId": "MIR:00100291",
|
|
1265
|
+
"description": "Vectorbase at EMBL-EBI",
|
|
1266
|
+
"official": true,
|
|
1267
|
+
"sampleId": "ISCW007415",
|
|
1268
|
+
"resourceHomeUrl": "https://www.vectorbase.org/",
|
|
1269
|
+
"institution": {
|
|
1270
|
+
"id": 2,
|
|
1271
|
+
"name": "European Bioinformatics Institute",
|
|
1272
|
+
"homeUrl": "https://www.ebi.ac.uk",
|
|
1273
|
+
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
1274
|
+
"rorId": "https://ror.org/02catss52",
|
|
1275
|
+
"location": {
|
|
1276
|
+
"countryCode": "GB",
|
|
1277
|
+
"countryName": "United Kingdom"
|
|
1278
|
+
}
|
|
1279
|
+
},
|
|
1280
|
+
"location": {
|
|
1281
|
+
"countryCode": "GB",
|
|
1282
|
+
"countryName": "United Kingdom"
|
|
1283
|
+
},
|
|
1284
|
+
"deprecated": false,
|
|
1285
|
+
"deprecationDate": null,
|
|
1286
|
+
"protectedUrls": false,
|
|
1287
|
+
"renderProtectedLanding": false,
|
|
1288
|
+
"authHelpUrl": null,
|
|
1289
|
+
"authHelpDescription": null
|
|
1290
|
+
}
|
|
1291
|
+
],
|
|
1292
|
+
"created": "2019-06-11T14:16:32.515+0000",
|
|
1293
|
+
"modified": "2024-01-12T10:30:39.284+0000",
|
|
1294
|
+
"sampleId": "ISCW007415",
|
|
367
1295
|
"deprecated": false,
|
|
368
1296
|
"deprecationDate": null
|
|
369
1297
|
},
|
|
370
|
-
"
|
|
371
|
-
"id":
|
|
372
|
-
"prefix": "
|
|
373
|
-
"name": "
|
|
374
|
-
"pattern": "^\\
|
|
1298
|
+
"pride": {
|
|
1299
|
+
"id": 228,
|
|
1300
|
+
"prefix": "pride",
|
|
1301
|
+
"name": "PRIDE",
|
|
1302
|
+
"pattern": "^\\d+$",
|
|
375
1303
|
"namespaceEmbeddedInLui": false,
|
|
376
|
-
"description": "
|
|
377
|
-
"mirId": "MIR:
|
|
1304
|
+
"description": "The PRIDE PRoteomics IDEntifications database is a centralized, standards compliant, public data repository that provides protein and peptide identifications together with supporting evidence. This collection references experiments and assays.",
|
|
1305
|
+
"mirId": "MIR:00000065",
|
|
378
1306
|
"resources": [
|
|
379
1307
|
{
|
|
380
|
-
"id":
|
|
381
|
-
"providerCode": "
|
|
382
|
-
"name": "
|
|
383
|
-
"urlPattern": "
|
|
384
|
-
"mirId": "MIR:
|
|
385
|
-
"description": "
|
|
386
|
-
"official":
|
|
387
|
-
"sampleId": "
|
|
388
|
-
"resourceHomeUrl": "
|
|
1308
|
+
"id": 229,
|
|
1309
|
+
"providerCode": "ebi",
|
|
1310
|
+
"name": "PRIDE at EBI",
|
|
1311
|
+
"urlPattern": "https://www.ebi.ac.uk/pride/archive/assays/{$id}",
|
|
1312
|
+
"mirId": "MIR:00100094",
|
|
1313
|
+
"description": "PRIDE at EBI",
|
|
1314
|
+
"official": true,
|
|
1315
|
+
"sampleId": "1",
|
|
1316
|
+
"resourceHomeUrl": "https://www.ebi.ac.uk/pride/",
|
|
389
1317
|
"institution": {
|
|
390
|
-
"id":
|
|
391
|
-
"name": "
|
|
392
|
-
"homeUrl": "https://
|
|
393
|
-
"description": "
|
|
394
|
-
"rorId":
|
|
1318
|
+
"id": 2,
|
|
1319
|
+
"name": "European Bioinformatics Institute",
|
|
1320
|
+
"homeUrl": "https://www.ebi.ac.uk",
|
|
1321
|
+
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
1322
|
+
"rorId": "https://ror.org/02catss52",
|
|
395
1323
|
"location": {
|
|
396
|
-
"countryCode": "
|
|
397
|
-
"countryName": "United
|
|
1324
|
+
"countryCode": "GB",
|
|
1325
|
+
"countryName": "United Kingdom"
|
|
398
1326
|
}
|
|
399
1327
|
},
|
|
400
1328
|
"location": {
|
|
401
|
-
"countryCode": "
|
|
402
|
-
"countryName": "United
|
|
1329
|
+
"countryCode": "GB",
|
|
1330
|
+
"countryName": "United Kingdom"
|
|
403
1331
|
},
|
|
404
1332
|
"deprecated": false,
|
|
405
1333
|
"deprecationDate": null,
|
|
@@ -409,45 +1337,45 @@
|
|
|
409
1337
|
"authHelpDescription": null
|
|
410
1338
|
}
|
|
411
1339
|
],
|
|
412
|
-
"created": "2019-06-11T14:15:
|
|
413
|
-
"modified": "
|
|
414
|
-
"sampleId": "
|
|
415
|
-
"deprecated":
|
|
416
|
-
"deprecationDate":
|
|
1340
|
+
"created": "2019-06-11T14:15:50.454+0000",
|
|
1341
|
+
"modified": "2024-03-22T10:18:22.059+0000",
|
|
1342
|
+
"sampleId": "1",
|
|
1343
|
+
"deprecated": true,
|
|
1344
|
+
"deprecationDate": "2024-03-22T09:58:34.344+0000"
|
|
417
1345
|
},
|
|
418
|
-
"
|
|
419
|
-
"id":
|
|
420
|
-
"prefix": "
|
|
421
|
-
"name": "
|
|
422
|
-
"pattern": "
|
|
1346
|
+
"3dmet": {
|
|
1347
|
+
"id": 230,
|
|
1348
|
+
"prefix": "3dmet",
|
|
1349
|
+
"name": "3DMET",
|
|
1350
|
+
"pattern": "^B\\d{5}$",
|
|
423
1351
|
"namespaceEmbeddedInLui": false,
|
|
424
|
-
"description": "
|
|
425
|
-
"mirId": "MIR:
|
|
1352
|
+
"description": "3DMET is a database collecting three-dimensional structures of natural metabolites.",
|
|
1353
|
+
"mirId": "MIR:00000066",
|
|
426
1354
|
"resources": [
|
|
427
1355
|
{
|
|
428
|
-
"id":
|
|
429
|
-
"providerCode": "
|
|
430
|
-
"name": "
|
|
431
|
-
"urlPattern": "
|
|
432
|
-
"mirId": "MIR:
|
|
433
|
-
"description": "
|
|
1356
|
+
"id": 232,
|
|
1357
|
+
"providerCode": "nias",
|
|
1358
|
+
"name": "3DMET database",
|
|
1359
|
+
"urlPattern": "http://www.3dmet.dna.affrc.go.jp/cgi/show_data.php?acc={$id}",
|
|
1360
|
+
"mirId": "MIR:00100095",
|
|
1361
|
+
"description": "3DMET database",
|
|
434
1362
|
"official": false,
|
|
435
|
-
"sampleId": "
|
|
436
|
-
"resourceHomeUrl": "
|
|
1363
|
+
"sampleId": "B00162",
|
|
1364
|
+
"resourceHomeUrl": "http://www.3dmet.dna.affrc.go.jp/",
|
|
437
1365
|
"institution": {
|
|
438
|
-
"id":
|
|
439
|
-
"name": "
|
|
440
|
-
"homeUrl": "http://www.
|
|
441
|
-
"description": "
|
|
442
|
-
"rorId": "https://ror.org/
|
|
1366
|
+
"id": 231,
|
|
1367
|
+
"name": "National Institute of Agrobiological Sciences",
|
|
1368
|
+
"homeUrl": "http://www.naro.affrc.go.jp/archive/nias/index_e.html",
|
|
1369
|
+
"description": "The National Institute of Agrobiological Sciences (NIAS) is the largest agricultural research institute in Japan for basic life sciences. As a major research institute of the Ministry of Agriculture, Forestry and Fisheries (MAFF), it was formerly known as the National Institute of Agrobiological Resources (NIAR) until it was re-established as an independent administrative institution in April 1, 2001. The institute focuses on understanding the biological phenomena of agriculturally important plants, insects, microbes and animals to create innovative technologies, and eventually contribute to the solution of global issues such as food shortage due to rapid population growth and environmental problems due to climate change",
|
|
1370
|
+
"rorId": "https://ror.org/01786mp71",
|
|
443
1371
|
"location": {
|
|
444
|
-
"countryCode": "
|
|
445
|
-
"countryName": "
|
|
1372
|
+
"countryCode": "JP",
|
|
1373
|
+
"countryName": "Japan"
|
|
446
1374
|
}
|
|
447
1375
|
},
|
|
448
1376
|
"location": {
|
|
449
|
-
"countryCode": "
|
|
450
|
-
"countryName": "
|
|
1377
|
+
"countryCode": "JP",
|
|
1378
|
+
"countryName": "Japan"
|
|
451
1379
|
},
|
|
452
1380
|
"deprecated": false,
|
|
453
1381
|
"deprecationDate": null,
|
|
@@ -457,11 +1385,11 @@
|
|
|
457
1385
|
"authHelpDescription": null
|
|
458
1386
|
}
|
|
459
1387
|
],
|
|
460
|
-
"created": "2019-06-11T14:
|
|
461
|
-
"modified": "
|
|
462
|
-
"sampleId": "
|
|
463
|
-
"deprecated":
|
|
464
|
-
"deprecationDate":
|
|
1388
|
+
"created": "2019-06-11T14:15:50.652+0000",
|
|
1389
|
+
"modified": "2024-02-12T09:37:02.753+0000",
|
|
1390
|
+
"sampleId": "B00162",
|
|
1391
|
+
"deprecated": true,
|
|
1392
|
+
"deprecationDate": "2024-02-12T09:35:45.473+0000"
|
|
465
1393
|
},
|
|
466
1394
|
"dragondb.allele": {
|
|
467
1395
|
"id": 873,
|
|
@@ -1500,12 +2428,12 @@
|
|
|
1500
2428
|
"id": 2703,
|
|
1501
2429
|
"providerCode": "cellrepo",
|
|
1502
2430
|
"name": "CellRepo",
|
|
1503
|
-
"urlPattern": "https://cellrepo.
|
|
2431
|
+
"urlPattern": "https://www.cellrepo.com/repositories/{$id}",
|
|
1504
2432
|
"mirId": "MIR:00000826",
|
|
1505
2433
|
"description": "CellRepo is the single worldwide version control repository for engineered and natural cell lines",
|
|
1506
2434
|
"official": true,
|
|
1507
|
-
"sampleId": "
|
|
1508
|
-
"resourceHomeUrl": "https://cellrepo.
|
|
2435
|
+
"sampleId": "7",
|
|
2436
|
+
"resourceHomeUrl": "https://www.cellrepo.com/",
|
|
1509
2437
|
"institution": {
|
|
1510
2438
|
"id": 2701,
|
|
1511
2439
|
"name": "Interdisciplinary Computing and Complex BioSystems (ICOS) Research Group, Newcastle University, Newcastle upon Tyne, UK",
|
|
@@ -2476,7 +3404,7 @@
|
|
|
2476
3404
|
"id": 45,
|
|
2477
3405
|
"providerCode": "CURATOR_REVIEW",
|
|
2478
3406
|
"name": "International Statistical Classification of Diseases and Related Health Problems",
|
|
2479
|
-
"urlPattern": "
|
|
3407
|
+
"urlPattern": "https://icd.who.int/browse10/2019/en#/{$id}",
|
|
2480
3408
|
"mirId": "MIR:00100016",
|
|
2481
3409
|
"description": "International Statistical Classification of Diseases and Related Health Problems",
|
|
2482
3410
|
"official": false,
|
|
@@ -6335,102 +7263,6 @@
|
|
|
6335
7263
|
"deprecated": false,
|
|
6336
7264
|
"deprecationDate": null
|
|
6337
7265
|
},
|
|
6338
|
-
"pride": {
|
|
6339
|
-
"id": 228,
|
|
6340
|
-
"prefix": "pride",
|
|
6341
|
-
"name": "PRIDE",
|
|
6342
|
-
"pattern": "^\\d+$",
|
|
6343
|
-
"namespaceEmbeddedInLui": false,
|
|
6344
|
-
"description": "The PRIDE PRoteomics IDEntifications database is a centralized, standards compliant, public data repository that provides protein and peptide identifications together with supporting evidence. This collection references experiments and assays.",
|
|
6345
|
-
"mirId": "MIR:00000065",
|
|
6346
|
-
"resources": [
|
|
6347
|
-
{
|
|
6348
|
-
"id": 229,
|
|
6349
|
-
"providerCode": "ebi",
|
|
6350
|
-
"name": "PRIDE at EBI",
|
|
6351
|
-
"urlPattern": "https://www.ebi.ac.uk/pride/archive/assays/{$id}",
|
|
6352
|
-
"mirId": "MIR:00100094",
|
|
6353
|
-
"description": "PRIDE at EBI",
|
|
6354
|
-
"official": true,
|
|
6355
|
-
"sampleId": "1",
|
|
6356
|
-
"resourceHomeUrl": "https://www.ebi.ac.uk/pride/",
|
|
6357
|
-
"institution": {
|
|
6358
|
-
"id": 2,
|
|
6359
|
-
"name": "European Bioinformatics Institute",
|
|
6360
|
-
"homeUrl": "https://www.ebi.ac.uk",
|
|
6361
|
-
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
6362
|
-
"rorId": "https://ror.org/02catss52",
|
|
6363
|
-
"location": {
|
|
6364
|
-
"countryCode": "GB",
|
|
6365
|
-
"countryName": "United Kingdom"
|
|
6366
|
-
}
|
|
6367
|
-
},
|
|
6368
|
-
"location": {
|
|
6369
|
-
"countryCode": "GB",
|
|
6370
|
-
"countryName": "United Kingdom"
|
|
6371
|
-
},
|
|
6372
|
-
"deprecated": false,
|
|
6373
|
-
"deprecationDate": null,
|
|
6374
|
-
"protectedUrls": false,
|
|
6375
|
-
"renderProtectedLanding": false,
|
|
6376
|
-
"authHelpUrl": null,
|
|
6377
|
-
"authHelpDescription": null
|
|
6378
|
-
}
|
|
6379
|
-
],
|
|
6380
|
-
"created": "2019-06-11T14:15:50.454+0000",
|
|
6381
|
-
"modified": "2019-06-11T14:15:50.454+0000",
|
|
6382
|
-
"sampleId": "1",
|
|
6383
|
-
"deprecated": false,
|
|
6384
|
-
"deprecationDate": null
|
|
6385
|
-
},
|
|
6386
|
-
"3dmet": {
|
|
6387
|
-
"id": 230,
|
|
6388
|
-
"prefix": "3dmet",
|
|
6389
|
-
"name": "3DMET",
|
|
6390
|
-
"pattern": "^B\\d{5}$",
|
|
6391
|
-
"namespaceEmbeddedInLui": false,
|
|
6392
|
-
"description": "3DMET is a database collecting three-dimensional structures of natural metabolites.",
|
|
6393
|
-
"mirId": "MIR:00000066",
|
|
6394
|
-
"resources": [
|
|
6395
|
-
{
|
|
6396
|
-
"id": 232,
|
|
6397
|
-
"providerCode": "nias",
|
|
6398
|
-
"name": "3DMET database",
|
|
6399
|
-
"urlPattern": "http://www.3dmet.dna.affrc.go.jp/cgi/show_data.php?acc={$id}",
|
|
6400
|
-
"mirId": "MIR:00100095",
|
|
6401
|
-
"description": "3DMET database",
|
|
6402
|
-
"official": false,
|
|
6403
|
-
"sampleId": "B00162",
|
|
6404
|
-
"resourceHomeUrl": "http://www.3dmet.dna.affrc.go.jp/",
|
|
6405
|
-
"institution": {
|
|
6406
|
-
"id": 231,
|
|
6407
|
-
"name": "National Institute of Agrobiological Sciences",
|
|
6408
|
-
"homeUrl": "http://www.naro.affrc.go.jp/archive/nias/index_e.html",
|
|
6409
|
-
"description": "The National Institute of Agrobiological Sciences (NIAS) is the largest agricultural research institute in Japan for basic life sciences. As a major research institute of the Ministry of Agriculture, Forestry and Fisheries (MAFF), it was formerly known as the National Institute of Agrobiological Resources (NIAR) until it was re-established as an independent administrative institution in April 1, 2001. The institute focuses on understanding the biological phenomena of agriculturally important plants, insects, microbes and animals to create innovative technologies, and eventually contribute to the solution of global issues such as food shortage due to rapid population growth and environmental problems due to climate change",
|
|
6410
|
-
"rorId": "https://ror.org/01786mp71",
|
|
6411
|
-
"location": {
|
|
6412
|
-
"countryCode": "JP",
|
|
6413
|
-
"countryName": "Japan"
|
|
6414
|
-
}
|
|
6415
|
-
},
|
|
6416
|
-
"location": {
|
|
6417
|
-
"countryCode": "JP",
|
|
6418
|
-
"countryName": "Japan"
|
|
6419
|
-
},
|
|
6420
|
-
"deprecated": false,
|
|
6421
|
-
"deprecationDate": null,
|
|
6422
|
-
"protectedUrls": false,
|
|
6423
|
-
"renderProtectedLanding": false,
|
|
6424
|
-
"authHelpUrl": null,
|
|
6425
|
-
"authHelpDescription": null
|
|
6426
|
-
}
|
|
6427
|
-
],
|
|
6428
|
-
"created": "2019-06-11T14:15:50.652+0000",
|
|
6429
|
-
"modified": "2019-06-11T14:15:50.652+0000",
|
|
6430
|
-
"sampleId": "B00162",
|
|
6431
|
-
"deprecated": false,
|
|
6432
|
-
"deprecationDate": null
|
|
6433
|
-
},
|
|
6434
7266
|
"fma": {
|
|
6435
7267
|
"id": 233,
|
|
6436
7268
|
"prefix": "fma",
|
|
@@ -12991,86 +13823,6 @@
|
|
|
12991
13823
|
"deprecated": false,
|
|
12992
13824
|
"deprecationDate": null
|
|
12993
13825
|
},
|
|
12994
|
-
"edam": {
|
|
12995
|
-
"id": 575,
|
|
12996
|
-
"prefix": "edam",
|
|
12997
|
-
"name": "EDAM Ontology",
|
|
12998
|
-
"pattern": "^(data|topic|operation|format)\\_\\d{4}$",
|
|
12999
|
-
"namespaceEmbeddedInLui": false,
|
|
13000
|
-
"description": "EDAM is an ontology of general bioinformatics concepts, including topics, data types, formats, identifiers and operations. EDAM provides a controlled vocabulary for the description, in semantic terms, of things such as: web services (e.g. WSDL files), applications, tool collections and packages, work-benches and workflow software, databases and ontologies, XSD data schema and data objects, data syntax and file formats, web portals and pages, resource catalogues and documents (such as scientific publications).",
|
|
13001
|
-
"mirId": "MIR:00000189",
|
|
13002
|
-
"resources": [
|
|
13003
|
-
{
|
|
13004
|
-
"id": 576,
|
|
13005
|
-
"providerCode": "bptl",
|
|
13006
|
-
"name": "EDAM through BioPortal",
|
|
13007
|
-
"urlPattern": "http://purl.bioontology.org/ontology/EDAM/{$id}",
|
|
13008
|
-
"mirId": "MIR:00100536",
|
|
13009
|
-
"description": "EDAM through BioPortal",
|
|
13010
|
-
"official": false,
|
|
13011
|
-
"sampleId": "data_1664",
|
|
13012
|
-
"resourceHomeUrl": "http://bioportal.bioontology.org/ontologies/EDAM",
|
|
13013
|
-
"institution": {
|
|
13014
|
-
"id": 5,
|
|
13015
|
-
"name": "National Center for Biomedical Ontology, Stanford",
|
|
13016
|
-
"homeUrl": "https://ncbo.bioontology.org/",
|
|
13017
|
-
"description": "The goal of the National Center for Biomedical Ontology is to support biomedical researchers in their knowledge-intensive work, by providing online tools and a Web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. A major focus of our work involves the use of biomedical ontologies to aid in the management and analysis of data derived from complex experiments.",
|
|
13018
|
-
"rorId": null,
|
|
13019
|
-
"location": {
|
|
13020
|
-
"countryCode": "US",
|
|
13021
|
-
"countryName": "United States"
|
|
13022
|
-
}
|
|
13023
|
-
},
|
|
13024
|
-
"location": {
|
|
13025
|
-
"countryCode": "US",
|
|
13026
|
-
"countryName": "United States"
|
|
13027
|
-
},
|
|
13028
|
-
"deprecated": false,
|
|
13029
|
-
"deprecationDate": null,
|
|
13030
|
-
"protectedUrls": false,
|
|
13031
|
-
"renderProtectedLanding": false,
|
|
13032
|
-
"authHelpUrl": null,
|
|
13033
|
-
"authHelpDescription": null
|
|
13034
|
-
},
|
|
13035
|
-
{
|
|
13036
|
-
"id": 577,
|
|
13037
|
-
"providerCode": "ols",
|
|
13038
|
-
"name": "EDAM through OLS",
|
|
13039
|
-
"urlPattern": "https://www.ebi.ac.uk/ols4/ontologies/edam/terms?short_form={$id}",
|
|
13040
|
-
"mirId": "MIR:00100762",
|
|
13041
|
-
"description": "EDAM through OLS",
|
|
13042
|
-
"official": false,
|
|
13043
|
-
"sampleId": "data_1664",
|
|
13044
|
-
"resourceHomeUrl": "https://www.ebi.ac.uk/ols4/ontologies/edam",
|
|
13045
|
-
"institution": {
|
|
13046
|
-
"id": 2,
|
|
13047
|
-
"name": "European Bioinformatics Institute",
|
|
13048
|
-
"homeUrl": "https://www.ebi.ac.uk",
|
|
13049
|
-
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
13050
|
-
"rorId": "https://ror.org/02catss52",
|
|
13051
|
-
"location": {
|
|
13052
|
-
"countryCode": "GB",
|
|
13053
|
-
"countryName": "United Kingdom"
|
|
13054
|
-
}
|
|
13055
|
-
},
|
|
13056
|
-
"location": {
|
|
13057
|
-
"countryCode": "GB",
|
|
13058
|
-
"countryName": "United Kingdom"
|
|
13059
|
-
},
|
|
13060
|
-
"deprecated": false,
|
|
13061
|
-
"deprecationDate": null,
|
|
13062
|
-
"protectedUrls": false,
|
|
13063
|
-
"renderProtectedLanding": false,
|
|
13064
|
-
"authHelpUrl": null,
|
|
13065
|
-
"authHelpDescription": null
|
|
13066
|
-
}
|
|
13067
|
-
],
|
|
13068
|
-
"created": "2019-06-11T14:16:22.318+0000",
|
|
13069
|
-
"modified": "2019-06-11T14:16:22.318+0000",
|
|
13070
|
-
"sampleId": "data_1664",
|
|
13071
|
-
"deprecated": false,
|
|
13072
|
-
"deprecationDate": null
|
|
13073
|
-
},
|
|
13074
13826
|
"pmdb": {
|
|
13075
13827
|
"id": 578,
|
|
13076
13828
|
"prefix": "pmdb",
|
|
@@ -15007,54 +15759,6 @@
|
|
|
15007
15759
|
"deprecated": false,
|
|
15008
15760
|
"deprecationDate": null
|
|
15009
15761
|
},
|
|
15010
|
-
"vectorbase": {
|
|
15011
|
-
"id": 687,
|
|
15012
|
-
"prefix": "vectorbase",
|
|
15013
|
-
"name": "VectorBase",
|
|
15014
|
-
"pattern": "^\\D{4}\\d{6}(\\-\\D{2})?$",
|
|
15015
|
-
"namespaceEmbeddedInLui": false,
|
|
15016
|
-
"description": "VectorBase is an NIAID-funded Bioinformatic Resource Center focused on invertebrate vectors of human pathogens. VectorBase annotates and curates vector genomes providing a web accessible integrated resource for the research community. Currently, VectorBase contains genome information for three mosquito species: Aedes aegypti, Anopheles gambiae and Culex quinquefasciatus, a body louse Pediculus humanus and a tick species Ixodes scapularis.",
|
|
15017
|
-
"mirId": "MIR:00000232",
|
|
15018
|
-
"resources": [
|
|
15019
|
-
{
|
|
15020
|
-
"id": 688,
|
|
15021
|
-
"providerCode": "ebi",
|
|
15022
|
-
"name": "Vectorbase at EMBL-EBI",
|
|
15023
|
-
"urlPattern": "https://vectorbase.org/gene/{$id}",
|
|
15024
|
-
"mirId": "MIR:00100291",
|
|
15025
|
-
"description": "Vectorbase at EMBL-EBI",
|
|
15026
|
-
"official": true,
|
|
15027
|
-
"sampleId": "ISCW007415",
|
|
15028
|
-
"resourceHomeUrl": "https://www.vectorbase.org/",
|
|
15029
|
-
"institution": {
|
|
15030
|
-
"id": 2,
|
|
15031
|
-
"name": "European Bioinformatics Institute",
|
|
15032
|
-
"homeUrl": "https://www.ebi.ac.uk",
|
|
15033
|
-
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
15034
|
-
"rorId": "https://ror.org/02catss52",
|
|
15035
|
-
"location": {
|
|
15036
|
-
"countryCode": "GB",
|
|
15037
|
-
"countryName": "United Kingdom"
|
|
15038
|
-
}
|
|
15039
|
-
},
|
|
15040
|
-
"location": {
|
|
15041
|
-
"countryCode": "GB",
|
|
15042
|
-
"countryName": "United Kingdom"
|
|
15043
|
-
},
|
|
15044
|
-
"deprecated": false,
|
|
15045
|
-
"deprecationDate": null,
|
|
15046
|
-
"protectedUrls": false,
|
|
15047
|
-
"renderProtectedLanding": false,
|
|
15048
|
-
"authHelpUrl": null,
|
|
15049
|
-
"authHelpDescription": null
|
|
15050
|
-
}
|
|
15051
|
-
],
|
|
15052
|
-
"created": "2019-06-11T14:16:32.515+0000",
|
|
15053
|
-
"modified": "2019-06-11T14:16:32.515+0000",
|
|
15054
|
-
"sampleId": "ISCW007415",
|
|
15055
|
-
"deprecated": false,
|
|
15056
|
-
"deprecationDate": null
|
|
15057
|
-
},
|
|
15058
15762
|
"mirbase.mature": {
|
|
15059
15763
|
"id": 696,
|
|
15060
15764
|
"prefix": "mirbase.mature",
|
|
@@ -21068,7 +21772,7 @@
|
|
|
21068
21772
|
"id": 1040,
|
|
21069
21773
|
"providerCode": "ebi",
|
|
21070
21774
|
"name": "HGNC Symbol at HUGO Genome Nomenclature Committee",
|
|
21071
|
-
"urlPattern": "https://www.genenames.org/
|
|
21775
|
+
"urlPattern": "https://www.genenames.org/data/gene-symbol-report/#!/symbol/{$id}",
|
|
21072
21776
|
"mirId": "MIR:00100460",
|
|
21073
21777
|
"description": "HGNC Symbol at HUGO Genome Nomenclature Committee",
|
|
21074
21778
|
"official": false,
|
|
@@ -23564,12 +24268,12 @@
|
|
|
23564
24268
|
"id": 1188,
|
|
23565
24269
|
"providerCode": "ebi",
|
|
23566
24270
|
"name": "Rfam at EMBL-EBI",
|
|
23567
|
-
"urlPattern": "https://rfam.
|
|
24271
|
+
"urlPattern": "https://rfam.org/family/{$id}",
|
|
23568
24272
|
"mirId": "MIR:00100686",
|
|
23569
24273
|
"description": "Rfam at EMBL-EBI",
|
|
23570
24274
|
"official": true,
|
|
23571
24275
|
"sampleId": "RF00230",
|
|
23572
|
-
"resourceHomeUrl": "https://rfam.
|
|
24276
|
+
"resourceHomeUrl": "https://rfam.org/",
|
|
23573
24277
|
"institution": {
|
|
23574
24278
|
"id": 2,
|
|
23575
24279
|
"name": "European Bioinformatics Institute",
|
|
@@ -32033,7 +32737,7 @@
|
|
|
32033
32737
|
"description": "dbGaP through NCBI",
|
|
32034
32738
|
"official": true,
|
|
32035
32739
|
"sampleId": "phs000768.v2.p1",
|
|
32036
|
-
"resourceHomeUrl": "https://www.ncbi.nlm.nih.gov/
|
|
32740
|
+
"resourceHomeUrl": "https://www.ncbi.nlm.nih.gov/gap/",
|
|
32037
32741
|
"institution": {
|
|
32038
32742
|
"id": 26,
|
|
32039
32743
|
"name": "National Center for Biotechnology Information",
|
|
@@ -32943,86 +33647,6 @@
|
|
|
32943
33647
|
"deprecated": false,
|
|
32944
33648
|
"deprecationDate": null
|
|
32945
33649
|
},
|
|
32946
|
-
"mzspec": {
|
|
32947
|
-
"id": 1735,
|
|
32948
|
-
"prefix": "mzspec",
|
|
32949
|
-
"name": "Universal Spectrum Identifier",
|
|
32950
|
-
"pattern": "^mzspec:.+$",
|
|
32951
|
-
"namespaceEmbeddedInLui": true,
|
|
32952
|
-
"description": "The Universal Spectrum Identifier (USI) is a compound identifier that provides an abstract path to refer to a single spectrum generated by a mass spectrometer, and potentially the ion that is thought to have produced it.",
|
|
32953
|
-
"mirId": "MIR:00000625",
|
|
32954
|
-
"resources": [
|
|
32955
|
-
{
|
|
32956
|
-
"id": 1737,
|
|
32957
|
-
"providerCode": "CURATOR_REVIEW",
|
|
32958
|
-
"name": "Universal Spectrum Identifier through Peptide Atlas",
|
|
32959
|
-
"urlPattern": "https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/ShowObservedSpectrum?usi=mzspec:{$id}",
|
|
32960
|
-
"mirId": "MIR:00100829",
|
|
32961
|
-
"description": "Universal Spectrum Identifier through Peptide Atlas",
|
|
32962
|
-
"official": false,
|
|
32963
|
-
"sampleId": "PXD002255::ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2",
|
|
32964
|
-
"resourceHomeUrl": "https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/ShowObservedSpectrum",
|
|
32965
|
-
"institution": {
|
|
32966
|
-
"id": 193,
|
|
32967
|
-
"name": "Institute for Systems Biology",
|
|
32968
|
-
"homeUrl": "https://isbscience.org/",
|
|
32969
|
-
"description": "ISB was created in 2000 as the first-ever institute dedicated to systems biology.",
|
|
32970
|
-
"rorId": "https://ror.org/02tpgw303",
|
|
32971
|
-
"location": {
|
|
32972
|
-
"countryCode": "US",
|
|
32973
|
-
"countryName": "United States"
|
|
32974
|
-
}
|
|
32975
|
-
},
|
|
32976
|
-
"location": {
|
|
32977
|
-
"countryCode": "US",
|
|
32978
|
-
"countryName": "United States"
|
|
32979
|
-
},
|
|
32980
|
-
"deprecated": false,
|
|
32981
|
-
"deprecationDate": null,
|
|
32982
|
-
"protectedUrls": false,
|
|
32983
|
-
"renderProtectedLanding": false,
|
|
32984
|
-
"authHelpUrl": null,
|
|
32985
|
-
"authHelpDescription": null
|
|
32986
|
-
},
|
|
32987
|
-
{
|
|
32988
|
-
"id": 2394,
|
|
32989
|
-
"providerCode": "pc",
|
|
32990
|
-
"name": "Institute for Systems Biology, Seattle, USA",
|
|
32991
|
-
"urlPattern": "http://proteomecentral.proteomexchange.org/usi/?usi=mzspec:{$id}",
|
|
32992
|
-
"mirId": "MIR:00000771",
|
|
32993
|
-
"description": "Institute for Systems Biology (ISB), Seattle, USA is an independent research institute focusing on systems biology.",
|
|
32994
|
-
"official": true,
|
|
32995
|
-
"sampleId": "PXD000865:00603_F01_P004608_B00F_A00_R1:scan:14453:SSLLDVLAAR/2",
|
|
32996
|
-
"resourceHomeUrl": "http://proteomecentral.proteomexchange.org/",
|
|
32997
|
-
"institution": {
|
|
32998
|
-
"id": 193,
|
|
32999
|
-
"name": "Institute for Systems Biology",
|
|
33000
|
-
"homeUrl": "https://isbscience.org/",
|
|
33001
|
-
"description": "ISB was created in 2000 as the first-ever institute dedicated to systems biology.",
|
|
33002
|
-
"rorId": "https://ror.org/02tpgw303",
|
|
33003
|
-
"location": {
|
|
33004
|
-
"countryCode": "US",
|
|
33005
|
-
"countryName": "United States"
|
|
33006
|
-
}
|
|
33007
|
-
},
|
|
33008
|
-
"location": {
|
|
33009
|
-
"countryCode": "US",
|
|
33010
|
-
"countryName": "United States"
|
|
33011
|
-
},
|
|
33012
|
-
"deprecated": false,
|
|
33013
|
-
"deprecationDate": null,
|
|
33014
|
-
"protectedUrls": false,
|
|
33015
|
-
"renderProtectedLanding": false,
|
|
33016
|
-
"authHelpUrl": null,
|
|
33017
|
-
"authHelpDescription": null
|
|
33018
|
-
}
|
|
33019
|
-
],
|
|
33020
|
-
"created": "2019-06-11T14:18:05.468+0000",
|
|
33021
|
-
"modified": "2019-06-11T14:18:05.468+0000",
|
|
33022
|
-
"sampleId": "PXD002255::ES_XP_Ubi_97H_HCD_349:scan:9617:LAEIYVNSSFYK/2",
|
|
33023
|
-
"deprecated": false,
|
|
33024
|
-
"deprecationDate": null
|
|
33025
|
-
},
|
|
33026
33650
|
"crisprdb": {
|
|
33027
33651
|
"id": 1738,
|
|
33028
33652
|
"prefix": "crisprdb",
|
|
@@ -36863,86 +37487,6 @@
|
|
|
36863
37487
|
"deprecated": false,
|
|
36864
37488
|
"deprecationDate": null
|
|
36865
37489
|
},
|
|
36866
|
-
"insdc.gca": {
|
|
36867
|
-
"id": 1685,
|
|
36868
|
-
"prefix": "insdc.gca",
|
|
36869
|
-
"name": "Genome assembly database",
|
|
36870
|
-
"pattern": "^GC[AF]_[0-9]{9}\\.[0-9]+$",
|
|
36871
|
-
"namespaceEmbeddedInLui": false,
|
|
36872
|
-
"description": "The genome assembly database contains detailed information about genome assemblies for eukaryota, bacteria and archaea. The scope of the genome collections database does not extend to viruses, viroids and bacteriophage.",
|
|
36873
|
-
"mirId": "MIR:00000607",
|
|
36874
|
-
"resources": [
|
|
36875
|
-
{
|
|
36876
|
-
"id": 1686,
|
|
36877
|
-
"providerCode": "CURATOR_REVIEW",
|
|
36878
|
-
"name": "Genome assembly database through ENA",
|
|
36879
|
-
"urlPattern": "https://www.ebi.ac.uk/ena/data/view/{$id}",
|
|
36880
|
-
"mirId": "MIR:00100810",
|
|
36881
|
-
"description": "Genome assembly database through ENA",
|
|
36882
|
-
"official": false,
|
|
36883
|
-
"sampleId": "GCA_000155495.1",
|
|
36884
|
-
"resourceHomeUrl": "https://www.ebi.ac.uk/ena/browse/genome-assembly-database",
|
|
36885
|
-
"institution": {
|
|
36886
|
-
"id": 2,
|
|
36887
|
-
"name": "European Bioinformatics Institute",
|
|
36888
|
-
"homeUrl": "https://www.ebi.ac.uk",
|
|
36889
|
-
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
36890
|
-
"rorId": "https://ror.org/02catss52",
|
|
36891
|
-
"location": {
|
|
36892
|
-
"countryCode": "GB",
|
|
36893
|
-
"countryName": "United Kingdom"
|
|
36894
|
-
}
|
|
36895
|
-
},
|
|
36896
|
-
"location": {
|
|
36897
|
-
"countryCode": "GB",
|
|
36898
|
-
"countryName": "United Kingdom"
|
|
36899
|
-
},
|
|
36900
|
-
"deprecated": false,
|
|
36901
|
-
"deprecationDate": null,
|
|
36902
|
-
"protectedUrls": false,
|
|
36903
|
-
"renderProtectedLanding": false,
|
|
36904
|
-
"authHelpUrl": null,
|
|
36905
|
-
"authHelpDescription": null
|
|
36906
|
-
},
|
|
36907
|
-
{
|
|
36908
|
-
"id": 1687,
|
|
36909
|
-
"providerCode": "ncbi",
|
|
36910
|
-
"name": "Genome assembly database NCBI",
|
|
36911
|
-
"urlPattern": "https://www.ncbi.nlm.nih.gov/datasets/genome/{$id}",
|
|
36912
|
-
"mirId": "MIR:00100811",
|
|
36913
|
-
"description": "Genome assembly database NCBI",
|
|
36914
|
-
"official": false,
|
|
36915
|
-
"sampleId": "GCA_000155495.1",
|
|
36916
|
-
"resourceHomeUrl": "https://www.ncbi.nlm.nih.gov/datasets/genome/",
|
|
36917
|
-
"institution": {
|
|
36918
|
-
"id": 26,
|
|
36919
|
-
"name": "National Center for Biotechnology Information",
|
|
36920
|
-
"homeUrl": "https://www.ncbi.nlm.nih.gov/",
|
|
36921
|
-
"description": "The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information.",
|
|
36922
|
-
"rorId": "https://ror.org/02meqm098",
|
|
36923
|
-
"location": {
|
|
36924
|
-
"countryCode": "US",
|
|
36925
|
-
"countryName": "United States"
|
|
36926
|
-
}
|
|
36927
|
-
},
|
|
36928
|
-
"location": {
|
|
36929
|
-
"countryCode": "US",
|
|
36930
|
-
"countryName": "United States"
|
|
36931
|
-
},
|
|
36932
|
-
"deprecated": false,
|
|
36933
|
-
"deprecationDate": null,
|
|
36934
|
-
"protectedUrls": false,
|
|
36935
|
-
"renderProtectedLanding": false,
|
|
36936
|
-
"authHelpUrl": null,
|
|
36937
|
-
"authHelpDescription": null
|
|
36938
|
-
}
|
|
36939
|
-
],
|
|
36940
|
-
"created": "2019-06-11T14:18:01.236+0000",
|
|
36941
|
-
"modified": "2020-03-31T12:32:16.941+0000",
|
|
36942
|
-
"sampleId": "GCA_000155495.1",
|
|
36943
|
-
"deprecated": false,
|
|
36944
|
-
"deprecationDate": null
|
|
36945
|
-
},
|
|
36946
37490
|
"slm": {
|
|
36947
37491
|
"id": 1539,
|
|
36948
37492
|
"prefix": "slm",
|
|
@@ -37263,6 +37807,86 @@
|
|
|
37263
37807
|
"deprecated": false,
|
|
37264
37808
|
"deprecationDate": null
|
|
37265
37809
|
},
|
|
37810
|
+
"insdc.gca": {
|
|
37811
|
+
"id": 1685,
|
|
37812
|
+
"prefix": "insdc.gca",
|
|
37813
|
+
"name": "Genome assembly database - INSDC accessions",
|
|
37814
|
+
"pattern": "^GCA_[0-9]{9}(\\.[0-9]+)?$",
|
|
37815
|
+
"namespaceEmbeddedInLui": false,
|
|
37816
|
+
"description": "The genome assembly database contains detailed information about genome assemblies for eukaryota, bacteria and archaea. The scope of the genome collections database does not extend to viruses, viroids and bacteriophage.",
|
|
37817
|
+
"mirId": "MIR:00000607",
|
|
37818
|
+
"resources": [
|
|
37819
|
+
{
|
|
37820
|
+
"id": 1686,
|
|
37821
|
+
"providerCode": "CURATOR_REVIEW",
|
|
37822
|
+
"name": "Genome assembly database through ENA",
|
|
37823
|
+
"urlPattern": "https://www.ebi.ac.uk/ena/data/view/{$id}",
|
|
37824
|
+
"mirId": "MIR:00100810",
|
|
37825
|
+
"description": "Genome assembly database through ENA",
|
|
37826
|
+
"official": false,
|
|
37827
|
+
"sampleId": "GCA_000155495.1",
|
|
37828
|
+
"resourceHomeUrl": "https://www.ebi.ac.uk/ena/browse/genome-assembly-database",
|
|
37829
|
+
"institution": {
|
|
37830
|
+
"id": 2,
|
|
37831
|
+
"name": "European Bioinformatics Institute",
|
|
37832
|
+
"homeUrl": "https://www.ebi.ac.uk",
|
|
37833
|
+
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
37834
|
+
"rorId": "https://ror.org/02catss52",
|
|
37835
|
+
"location": {
|
|
37836
|
+
"countryCode": "GB",
|
|
37837
|
+
"countryName": "United Kingdom"
|
|
37838
|
+
}
|
|
37839
|
+
},
|
|
37840
|
+
"location": {
|
|
37841
|
+
"countryCode": "GB",
|
|
37842
|
+
"countryName": "United Kingdom"
|
|
37843
|
+
},
|
|
37844
|
+
"deprecated": false,
|
|
37845
|
+
"deprecationDate": null,
|
|
37846
|
+
"protectedUrls": false,
|
|
37847
|
+
"renderProtectedLanding": false,
|
|
37848
|
+
"authHelpUrl": null,
|
|
37849
|
+
"authHelpDescription": null
|
|
37850
|
+
},
|
|
37851
|
+
{
|
|
37852
|
+
"id": 1687,
|
|
37853
|
+
"providerCode": "ncbi",
|
|
37854
|
+
"name": "Genome assembly database NCBI",
|
|
37855
|
+
"urlPattern": "https://www.ncbi.nlm.nih.gov/datasets/genome/{$id}",
|
|
37856
|
+
"mirId": "MIR:00100811",
|
|
37857
|
+
"description": "Genome assembly database NCBI",
|
|
37858
|
+
"official": false,
|
|
37859
|
+
"sampleId": "GCA_000155495.1",
|
|
37860
|
+
"resourceHomeUrl": "https://www.ncbi.nlm.nih.gov/datasets/genome/",
|
|
37861
|
+
"institution": {
|
|
37862
|
+
"id": 26,
|
|
37863
|
+
"name": "National Center for Biotechnology Information",
|
|
37864
|
+
"homeUrl": "https://www.ncbi.nlm.nih.gov/",
|
|
37865
|
+
"description": "The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information.",
|
|
37866
|
+
"rorId": "https://ror.org/02meqm098",
|
|
37867
|
+
"location": {
|
|
37868
|
+
"countryCode": "US",
|
|
37869
|
+
"countryName": "United States"
|
|
37870
|
+
}
|
|
37871
|
+
},
|
|
37872
|
+
"location": {
|
|
37873
|
+
"countryCode": "US",
|
|
37874
|
+
"countryName": "United States"
|
|
37875
|
+
},
|
|
37876
|
+
"deprecated": false,
|
|
37877
|
+
"deprecationDate": null,
|
|
37878
|
+
"protectedUrls": false,
|
|
37879
|
+
"renderProtectedLanding": false,
|
|
37880
|
+
"authHelpUrl": null,
|
|
37881
|
+
"authHelpDescription": null
|
|
37882
|
+
}
|
|
37883
|
+
],
|
|
37884
|
+
"created": "2019-06-11T14:18:01.236+0000",
|
|
37885
|
+
"modified": "2023-10-30T09:41:30.572+0000",
|
|
37886
|
+
"sampleId": "GCA_000155495.1",
|
|
37887
|
+
"deprecated": false,
|
|
37888
|
+
"deprecationDate": null
|
|
37889
|
+
},
|
|
37266
37890
|
"rrid": {
|
|
37267
37891
|
"id": 1559,
|
|
37268
37892
|
"prefix": "rrid",
|
|
@@ -40476,12 +41100,12 @@
|
|
|
40476
41100
|
"id": 2757,
|
|
40477
41101
|
"providerCode": "nmdc",
|
|
40478
41102
|
"name": "Lawrence Berkeley National Laboratory",
|
|
40479
|
-
"urlPattern": "https://
|
|
41103
|
+
"urlPattern": "https://w3id.org/nmdc/{$id}",
|
|
40480
41104
|
"mirId": "MIR:00000836",
|
|
40481
|
-
"description": "
|
|
41105
|
+
"description": "A federally funded research and development centre in the hills of Berkeley, California, United States. Established in 1931 by the University of California (UC), the laboratory is sponsored by the United States Department of Energy and administered by the UC system.",
|
|
40482
41106
|
"official": true,
|
|
40483
41107
|
"sampleId": "6m4e-1vbv-03",
|
|
40484
|
-
"resourceHomeUrl": "
|
|
41108
|
+
"resourceHomeUrl": "http://www.lbl.gov/",
|
|
40485
41109
|
"institution": {
|
|
40486
41110
|
"id": 2755,
|
|
40487
41111
|
"name": "Lawrence Berkeley National Laboratory",
|
|
@@ -42143,54 +42767,6 @@
|
|
|
42143
42767
|
"deprecated": false,
|
|
42144
42768
|
"deprecationDate": null
|
|
42145
42769
|
},
|
|
42146
|
-
"dg.4825": {
|
|
42147
|
-
"id": 3142,
|
|
42148
|
-
"prefix": "dg.4825",
|
|
42149
|
-
"name": "ACCOuNT Data Commons",
|
|
42150
|
-
"pattern": "[0-9a-fA-F]{8}\\-[0-9a-fA-F]{4}\\-[0-9a-fA-F]{4}\\-[0-9a-fA-F]{4}\\-[0-9a-fA-F]{12}",
|
|
42151
|
-
"namespaceEmbeddedInLui": false,
|
|
42152
|
-
"description": "This website provides a centralized, cloud-based discovery portal for African American pharmacogenomics data and aims to accelerate discovery of novel genetic variants in African Americans related to clinically actionable cardiovascular phenotypes.",
|
|
42153
|
-
"mirId": "MIR:00001019",
|
|
42154
|
-
"resources": [
|
|
42155
|
-
{
|
|
42156
|
-
"id": 3143,
|
|
42157
|
-
"providerCode": "dg.4825",
|
|
42158
|
-
"name": "ACCOuNT Data Commons",
|
|
42159
|
-
"urlPattern": "https://acct.bionimbus.org/ga4gh/drs/v1/objects/{$id}",
|
|
42160
|
-
"mirId": "MIR:00001013",
|
|
42161
|
-
"description": "This website provides a centralized, cloud-based discovery portal for African American pharmacogenomics data and aims to accelerate discovery of novel genetic variants in African Americans related to clinically actionable cardiovascular phenotypes.",
|
|
42162
|
-
"official": true,
|
|
42163
|
-
"sampleId": "003a12b5-1002-4791-bf7f-0d6f71ebd67b",
|
|
42164
|
-
"resourceHomeUrl": "https://acct.bionimbus.org/",
|
|
42165
|
-
"institution": {
|
|
42166
|
-
"id": 2820,
|
|
42167
|
-
"name": "Open Commons Consortium",
|
|
42168
|
-
"homeUrl": "https://www.occ-data.org/",
|
|
42169
|
-
"description": "The Open Commons Consortium (OCC) manages and operates cloud computing, data commons, and data ecosystems to advance scientific, medical, health care and environmental research for human and societal impact.",
|
|
42170
|
-
"rorId": null,
|
|
42171
|
-
"location": {
|
|
42172
|
-
"countryCode": "US",
|
|
42173
|
-
"countryName": "United States"
|
|
42174
|
-
}
|
|
42175
|
-
},
|
|
42176
|
-
"location": {
|
|
42177
|
-
"countryCode": "US",
|
|
42178
|
-
"countryName": "United States"
|
|
42179
|
-
},
|
|
42180
|
-
"deprecated": false,
|
|
42181
|
-
"deprecationDate": null,
|
|
42182
|
-
"protectedUrls": false,
|
|
42183
|
-
"renderProtectedLanding": false,
|
|
42184
|
-
"authHelpUrl": null,
|
|
42185
|
-
"authHelpDescription": null
|
|
42186
|
-
}
|
|
42187
|
-
],
|
|
42188
|
-
"created": "2022-02-27T20:30:53.595+0000",
|
|
42189
|
-
"modified": "2022-02-27T20:30:53.595+0000",
|
|
42190
|
-
"sampleId": "003a12b5-1002-4791-bf7f-0d6f71ebd67b",
|
|
42191
|
-
"deprecated": false,
|
|
42192
|
-
"deprecationDate": null
|
|
42193
|
-
},
|
|
42194
42770
|
"dg.ea80": {
|
|
42195
42771
|
"id": 3149,
|
|
42196
42772
|
"prefix": "dg.ea80",
|
|
@@ -45231,54 +45807,6 @@
|
|
|
45231
45807
|
"deprecated": false,
|
|
45232
45808
|
"deprecationDate": null
|
|
45233
45809
|
},
|
|
45234
|
-
"stato": {
|
|
45235
|
-
"id": null,
|
|
45236
|
-
"prefix": "stato",
|
|
45237
|
-
"name": "STATO",
|
|
45238
|
-
"pattern": "^STATO:\\d+$",
|
|
45239
|
-
"namespaceEmbeddedInLui": true,
|
|
45240
|
-
"description": "STATO is the statistical methods ontology. It contains concepts and properties related to statistical methods, probability distributions and other concepts related to statistical analysis, including relationships to study designs and plots.",
|
|
45241
|
-
"mirId": null,
|
|
45242
|
-
"resources": [
|
|
45243
|
-
{
|
|
45244
|
-
"id": null,
|
|
45245
|
-
"providerCode": "ols",
|
|
45246
|
-
"name": "stato through OLS",
|
|
45247
|
-
"urlPattern": "https://www.ebi.ac.uk/ols4/ontologies/stato/terms?obo_id=STATO:{$id}",
|
|
45248
|
-
"mirId": null,
|
|
45249
|
-
"description": "stato through OLS",
|
|
45250
|
-
"official": false,
|
|
45251
|
-
"sampleId": null,
|
|
45252
|
-
"resourceHomeUrl": null,
|
|
45253
|
-
"institution": {
|
|
45254
|
-
"description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.",
|
|
45255
|
-
"homeUrl": "https://www.ebi.ac.uk",
|
|
45256
|
-
"id": 2,
|
|
45257
|
-
"location": {
|
|
45258
|
-
"countryCode": "GB",
|
|
45259
|
-
"countryName": "United Kingdom"
|
|
45260
|
-
},
|
|
45261
|
-
"name": "European Bioinformatics Institute",
|
|
45262
|
-
"rorId": "https://ror.org/02catss52"
|
|
45263
|
-
},
|
|
45264
|
-
"location": {
|
|
45265
|
-
"countryCode": "GB",
|
|
45266
|
-
"countryName": "United Kingdom"
|
|
45267
|
-
},
|
|
45268
|
-
"deprecated": false,
|
|
45269
|
-
"deprecationDate": null,
|
|
45270
|
-
"protectedUrls": false,
|
|
45271
|
-
"renderProtectedLanding": false,
|
|
45272
|
-
"authHelpUrl": null,
|
|
45273
|
-
"authHelpDescription": null
|
|
45274
|
-
}
|
|
45275
|
-
],
|
|
45276
|
-
"created": null,
|
|
45277
|
-
"modified": null,
|
|
45278
|
-
"sampleId": null,
|
|
45279
|
-
"deprecated": false,
|
|
45280
|
-
"deprecationDate": null
|
|
45281
|
-
},
|
|
45282
45810
|
"atol": {
|
|
45283
45811
|
"id": null,
|
|
45284
45812
|
"prefix": "atol",
|