cerebellar cortex — IGVFSM2019CSLW

1{
2    "@context": "/terms/",
3    "@id": "/tissues/IGVFSM2019CSLW/",
4    "@type": [
5        "Tissue",
6        "Biosample",
7        "Sample",
8        "Item"
9    ],
10    "accession": "IGVFSM2019CSLW",
11    "age": "78",
12    "age_units": "year",
13    "aliases": [
14        "igvf:corces_tissue_BANN1404_CBL"
15    ],
16    "audit": {
17        "INTERNAL_ACTION": [
18            {
19                "category": "mismatched status",
20                "detail": "Preview tissue [IGVFSM2019CSLW](/tissues/IGVFSM2019CSLW/) has in progress subobject phenotype term [DOID_14330](/phenotype-terms/DOID_14330/).",
21                "level": 30,
22                "level_name": "INTERNAL_ACTION",
23                "name": "audit_item_status",
24                "path": "/tissues/IGVFSM2019CSLW/"
25            },
26            {
27                "category": "mismatched status",
28                "detail": "Preview tissue [IGVFSM2019CSLW](/tissues/IGVFSM2019CSLW/) has in progress subobject phenotype term [DOID_9246](/phenotype-terms/DOID_9246/).",
29                "level": 30,
30                "level_name": "INTERNAL_ACTION",
31                "name": "audit_item_status",
32                "path": "/tissues/IGVFSM2019CSLW/"
33            },
34            {
35                "category": "mismatched status",
36                "detail": "Preview tissue [IGVFSM2019CSLW](/tissues/IGVFSM2019CSLW/) has in progress subobject phenotype term [DOID_0080832](/phenotype-terms/DOID_0080832/).",
37                "level": 30,
38                "level_name": "INTERNAL_ACTION",
39                "name": "audit_item_status",
40                "path": "/tissues/IGVFSM2019CSLW/"
41            },
42            {
43                "category": "missing CCF ID",
44                "detail": "Tissue [IGVFSM2019CSLW](/tissues/IGVFSM2019CSLW/) is missing a `ccf_id`. Human tissues are expected to specify a common coordinate framework identifier (CCF ID).",
45                "level": 30,
46                "level_name": "INTERNAL_ACTION",
47                "name": "audit_tissue_ccf_id",
48                "path": "/tissues/IGVFSM2019CSLW/"
49            }
50        ]
51    },
52    "award": {
53        "@id": "/awards/HG012076/",
54        "component": "mapping"
55    },
56    "classifications": [
57        "tissue"
58    ],
59    "creation_timestamp": "2025-03-19T04:08:26.101445+00:00",
60    "date_obtained": "2022-10-13",
61    "disease_terms": [
62        {
63            "@id": "/phenotype-terms/DOID_14330/",
64            "status": "in progress",
65            "term_name": "Parkinson's disease"
66        },
67        {
68            "@id": "/phenotype-terms/DOID_9246/",
69            "status": "in progress",
70            "term_name": "cerebral amyloid angiopathy"
71        },
72        {
73            "@id": "/phenotype-terms/DOID_0080832/",
74            "status": "in progress",
75            "term_name": "mild cognitive impairment"
76        }
77    ],
78    "donors": [
79        {
80            "@id": "/human-donors/IGVFDO2045AFUW/",
81            "accession": "IGVFDO2045AFUW",
82            "ethnicities": [
83                "European"
84            ],
85            "status": "preview"
86        }
87    ],
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91            "accession": "IGVFDS4496LMIG",
92            "aliases": [
93                "igvf:corces_measurementSet_X009_G7_ATAC"
94            ],
95            "file_set_type": "experimental data",
96            "lab": {
97                "title": "Ryan Corces, Gladstone Institute UCSF"
98            },
99            "preferred_assay_title": "10x multiome",
100            "status": "preview",
101            "summary": "single-nucleus ATAC-seq (10x multiome)"
102        },
103        {
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105            "accession": "IGVFDS9660MLYS",
106            "aliases": [
107                "igvf:corces_measurementSet_X009_G7_RNA"
108            ],
109            "file_set_type": "experimental data",
110            "lab": {
111                "title": "Ryan Corces, Gladstone Institute UCSF"
112            },
113            "preferred_assay_title": "10x multiome",
114            "status": "preview",
115            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
116        },
117        {
118            "@id": "/measurement-sets/IGVFDS2827YRAB/",
119            "accession": "IGVFDS2827YRAB",
120            "aliases": [
121                "igvf:corces_measurementSet_X009_G1_ATAC"
122            ],
123            "file_set_type": "experimental data",
124            "lab": {
125                "title": "Ryan Corces, Gladstone Institute UCSF"
126            },
127            "preferred_assay_title": "10x multiome",
128            "status": "preview",
129            "summary": "single-nucleus ATAC-seq (10x multiome)"
130        },
131        {
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133            "accession": "IGVFDS1476FCGD",
134            "aliases": [
135                "igvf:corces_measurementSet_X009_G1_RNA"
136            ],
137            "file_set_type": "experimental data",
138            "lab": {
139                "title": "Ryan Corces, Gladstone Institute UCSF"
140            },
141            "preferred_assay_title": "10x multiome",
142            "status": "preview",
143            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
144        },
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148            "aliases": [
149                "igvf:corces_measurementSet_X009_G2_ATAC"
150            ],
151            "file_set_type": "experimental data",
152            "lab": {
153                "title": "Ryan Corces, Gladstone Institute UCSF"
154            },
155            "preferred_assay_title": "10x multiome",
156            "status": "preview",
157            "summary": "single-nucleus ATAC-seq (10x multiome)"
158        },
159        {
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162            "aliases": [
163                "igvf:corces_measurementSet_X009_G2_RNA"
164            ],
165            "file_set_type": "experimental data",
166            "lab": {
167                "title": "Ryan Corces, Gladstone Institute UCSF"
168            },
169            "preferred_assay_title": "10x multiome",
170            "status": "preview",
171            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
172        },
173        {
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175            "accession": "IGVFDS1742WBNG",
176            "aliases": [
177                "igvf:corces_measurementSet_X009_G5_ATAC"
178            ],
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180            "lab": {
181                "title": "Ryan Corces, Gladstone Institute UCSF"
182            },
183            "preferred_assay_title": "10x multiome",
184            "status": "preview",
185            "summary": "single-nucleus ATAC-seq (10x multiome)"
186        },
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191                "igvf:corces_measurementSet_X009_G5_RNA"
192            ],
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194            "lab": {
195                "title": "Ryan Corces, Gladstone Institute UCSF"
196            },
197            "preferred_assay_title": "10x multiome",
198            "status": "preview",
199            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
200        },
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205                "igvf:corces_measurementSet_X009_G6_ATAC"
206            ],
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208            "lab": {
209                "title": "Ryan Corces, Gladstone Institute UCSF"
210            },
211            "preferred_assay_title": "10x multiome",
212            "status": "preview",
213            "summary": "single-nucleus ATAC-seq (10x multiome)"
214        },
215        {
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218            "aliases": [
219                "igvf:corces_measurementSet_X009_G6_RNA"
220            ],
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222            "lab": {
223                "title": "Ryan Corces, Gladstone Institute UCSF"
224            },
225            "preferred_assay_title": "10x multiome",
226            "status": "preview",
227            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
228        },
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233                "igvf:corces_measurementSet_X009_G8_ATAC"
234            ],
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236            "lab": {
237                "title": "Ryan Corces, Gladstone Institute UCSF"
238            },
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240            "status": "preview",
241            "summary": "single-nucleus ATAC-seq (10x multiome)"
242        },
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244            "@id": "/measurement-sets/IGVFDS4072OFXV/",
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246            "aliases": [
247                "igvf:corces_measurementSet_X009_G8_RNA"
248            ],
249            "file_set_type": "experimental data",
250            "lab": {
251                "title": "Ryan Corces, Gladstone Institute UCSF"
252            },
253            "preferred_assay_title": "10x multiome",
254            "status": "preview",
255            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
256        },
257        {
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259            "accession": "IGVFDS3971IMCD",
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261                "igvf:corces_measurementSet_X009_G3_ATAC"
262            ],
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264            "lab": {
265                "title": "Ryan Corces, Gladstone Institute UCSF"
266            },
267            "preferred_assay_title": "10x multiome",
268            "status": "preview",
269            "summary": "single-nucleus ATAC-seq (10x multiome)"
270        },
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274            "aliases": [
275                "igvf:corces_measurementSet_X009_G3_RNA"
276            ],
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278            "lab": {
279                "title": "Ryan Corces, Gladstone Institute UCSF"
280            },
281            "preferred_assay_title": "10x multiome",
282            "status": "preview",
283            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
284        },
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289                "igvf:corces_measurementSet_X009_G4_ATAC"
290            ],
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292            "lab": {
293                "title": "Ryan Corces, Gladstone Institute UCSF"
294            },
295            "preferred_assay_title": "10x multiome",
296            "status": "preview",
297            "summary": "single-nucleus ATAC-seq (10x multiome)"
298        },
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303                "igvf:corces_measurementSet_X009_G4_RNA"
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306            "lab": {
307                "title": "Ryan Corces, Gladstone Institute UCSF"
308            },
309            "preferred_assay_title": "10x multiome",
310            "status": "preview",
311            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
312        },
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317                "igvf:corces_measurementSet_RP018_G1_ATAC"
318            ],
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320            "lab": {
321                "title": "Ryan Corces, Gladstone Institute UCSF"
322            },
323            "preferred_assay_title": "10x multiome",
324            "status": "preview",
325            "summary": "single-nucleus ATAC-seq (10x multiome)"
326        },
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331                "igvf:corces_measurementSet_RP018_G1_RNA"
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334            "lab": {
335                "title": "Ryan Corces, Gladstone Institute UCSF"
336            },
337            "preferred_assay_title": "10x multiome",
338            "status": "preview",
339            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
340        },
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345                "igvf:corces_measurementSet_RP018_G2_ATAC"
346            ],
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348            "lab": {
349                "title": "Ryan Corces, Gladstone Institute UCSF"
350            },
351            "preferred_assay_title": "10x multiome",
352            "status": "preview",
353            "summary": "single-nucleus ATAC-seq (10x multiome)"
354        },
355        {
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358            "aliases": [
359                "igvf:corces_measurementSet_RP018_G2_RNA"
360            ],
361            "file_set_type": "experimental data",
362            "lab": {
363                "title": "Ryan Corces, Gladstone Institute UCSF"
364            },
365            "preferred_assay_title": "10x multiome",
366            "status": "preview",
367            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
368        },
369        {
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373                "igvf:corces_measurementSet_RP018_G4_ATAC"
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376            "lab": {
377                "title": "Ryan Corces, Gladstone Institute UCSF"
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379            "preferred_assay_title": "10x multiome",
380            "status": "preview",
381            "summary": "single-nucleus ATAC-seq (10x multiome)"
382        },
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391                "title": "Ryan Corces, Gladstone Institute UCSF"
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393            "preferred_assay_title": "10x multiome",
394            "status": "preview",
395            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
396        },
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405                "title": "Ryan Corces, Gladstone Institute UCSF"
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409            "summary": "single-nucleus ATAC-seq (10x multiome)"
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419                "title": "Ryan Corces, Gladstone Institute UCSF"
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432            "lab": {
433                "title": "Ryan Corces, Gladstone Institute UCSF"
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437            "summary": "single-nucleus ATAC-seq (10x multiome)"
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446            "lab": {
447                "title": "Ryan Corces, Gladstone Institute UCSF"
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450            "status": "preview",
451            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
452        },
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460            "lab": {
461                "title": "Ryan Corces, Gladstone Institute UCSF"
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464            "status": "preview",
465            "summary": "single-nucleus ATAC-seq (10x multiome)"
466        },
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474            "lab": {
475                "title": "Ryan Corces, Gladstone Institute UCSF"
476            },
477            "preferred_assay_title": "10x multiome",
478            "status": "preview",
479            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
480        }
481    ],
482    "institutional_certificates": [
483        {
484            "@id": "/institutional-certificates/f7742e0d-bba4-4ca3-ab80-71c7364f24e7/",
485            "certificate_identifier": "IP115-05",
486            "controlled_access": false,
487            "status": "in progress"
488        }
489    ],
490    "lab": {
491        "@id": "/labs/ryan-corces/",
492        "title": "Ryan Corces, Gladstone Institute UCSF"
493    },
494    "lower_bound_age": 78,
495    "lower_bound_age_in_hours": 683280,
496    "multiplexed_in": [
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498            "@id": "/multiplexed-samples/IGVFSM1068TNBF/",
499            "accession": "IGVFSM1068TNBF",
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520            "status": "preview"
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522        {
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525            "status": "preview"
526        },
527        {
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530            "status": "preview"
531        },
532        {
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535            "status": "preview"
536        },
537        {
538            "@id": "/multiplexed-samples/IGVFSM3143GHVU/",
539            "accession": "IGVFSM3143GHVU",
540            "status": "preview"
541        },
542        {
543            "@id": "/multiplexed-samples/IGVFSM9675WPZF/",
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545            "status": "preview"
546        },
547        {
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549            "accession": "IGVFSM1416OTQT",
550            "status": "preview"
551        },
552        {
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554            "accession": "IGVFSM0275PBUR",
555            "status": "preview"
556        },
557        {
558            "@id": "/multiplexed-samples/IGVFSM7137MKTX/",
559            "accession": "IGVFSM7137MKTX",
560            "status": "preview"
561        },
562        {
563            "@id": "/multiplexed-samples/IGVFSM4716JFLW/",
564            "accession": "IGVFSM4716JFLW",
565            "status": "preview"
566        }
567    ],
568    "origin_of": [],
569    "parts": [],
570    "pmi": 222,
571    "pmi_units": "minute",
572    "pooled_in": [],
573    "preservation_method": "flash-freezing",
574    "protocols": [
575        "https://www.protocols.io/view/isolation-of-nuclei-from-frozen-tissue-for-snmulti-6uchesw"
576    ],
577    "sample_terms": [
578        {
579            "@id": "/sample-terms/UBERON_0002129/",
580            "status": "preview",
581            "term_name": "cerebellar cortex"
582        }
583    ],
584    "schema_version": "21",
585    "sex": "male",
586    "sorted_fractions": [],
587    "sources": [
588        {
589            "@id": "/sources/banner-health/",
590            "status": "released",
591            "title": "Banner Health"
592        }
593    ],
594    "status": "preview",
595    "submitted_by": {
596        "@id": "/users/c13db3ca-f844-4a69-9056-5fbc4a100f36/",
597        "title": "Ryan Corces"
598    },
599    "summary": "Homo sapiens (male, 78 years) cerebellar cortex tissue associated with Parkinson's disease, cerebral amyloid angiopathy, mild cognitive impairment",
600    "taxa": "Homo sapiens",
601    "upper_bound_age": 78,
602    "upper_bound_age_in_hours": 683280,
603    "uuid": "6410dee1-a034-4e06-81dd-17bc7a571d7d",
604    "virtual": false
605}