cerebellar cortex — IGVFSM1004LTFO

preview
1{
2    "@context": "/terms/",
3    "@id": "/tissues/IGVFSM1004LTFO/",
4    "@type": [
5        "Tissue",
6        "Biosample",
7        "Sample",
8        "Item"
9    ],
10    "accession": "IGVFSM1004LTFO",
11    "age": "72",
12    "age_units": "year",
13    "aliases": [
14        "igvf:corces_tissue_BANN1864_CBL"
15    ],
16    "audit": {
17        "INTERNAL_ACTION": [
18            {
19                "category": "mismatched status",
20                "detail": "Preview tissue [IGVFSM1004LTFO](/tissues/IGVFSM1004LTFO/) has in progress subobject phenotype term [DOID_9246](/phenotype-terms/DOID_9246/).",
21                "level": 30,
22                "level_name": "INTERNAL_ACTION",
23                "name": "audit_item_status",
24                "path": "/tissues/IGVFSM1004LTFO/"
25            },
26            {
27                "category": "missing CCF ID",
28                "detail": "Tissue [IGVFSM1004LTFO](/tissues/IGVFSM1004LTFO/) is missing a `ccf_id`. Human tissues are expected to specify a common coordinate framework identifier (CCF ID).",
29                "level": 30,
30                "level_name": "INTERNAL_ACTION",
31                "name": "audit_tissue_ccf_id",
32                "path": "/tissues/IGVFSM1004LTFO/"
33            }
34        ]
35    },
36    "award": {
37        "@id": "/awards/HG012076/",
38        "component": "mapping"
39    },
40    "classifications": [
41        "tissue"
42    ],
43    "creation_timestamp": "2025-03-19T04:12:48.353773+00:00",
44    "date_obtained": "2023-02-01",
45    "disease_terms": [
46        {
47            "@id": "/phenotype-terms/DOID_9246/",
48            "status": "in progress",
49            "term_name": "cerebral amyloid angiopathy"
50        }
51    ],
52    "donors": [
53        {
54            "@id": "/human-donors/IGVFDO4170HAEN/",
55            "accession": "IGVFDO4170HAEN",
56            "status": "preview"
57        }
58    ],
59    "file_sets": [
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61            "@id": "/measurement-sets/IGVFDS7873KJJE/",
62            "accession": "IGVFDS7873KJJE",
63            "aliases": [
64                "igvf:corces_measurementSet_X033_G6_ATAC"
65            ],
66            "file_set_type": "experimental data",
67            "lab": {
68                "title": "Ryan Corces, Gladstone Institute UCSF"
69            },
70            "preferred_assay_title": "10x multiome",
71            "status": "preview",
72            "summary": "single-nucleus ATAC-seq (10x multiome)"
73        },
74        {
75            "@id": "/measurement-sets/IGVFDS6016KROL/",
76            "accession": "IGVFDS6016KROL",
77            "aliases": [
78                "igvf:corces_measurementSet_X033_G6_RNA"
79            ],
80            "file_set_type": "experimental data",
81            "lab": {
82                "title": "Ryan Corces, Gladstone Institute UCSF"
83            },
84            "preferred_assay_title": "10x multiome",
85            "status": "preview",
86            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
87        },
88        {
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90            "accession": "IGVFDS1083PVRL",
91            "aliases": [
92                "igvf:corces_measurementSet_X033_G4_ATAC"
93            ],
94            "file_set_type": "experimental data",
95            "lab": {
96                "title": "Ryan Corces, Gladstone Institute UCSF"
97            },
98            "preferred_assay_title": "10x multiome",
99            "status": "preview",
100            "summary": "single-nucleus ATAC-seq (10x multiome)"
101        },
102        {
103            "@id": "/measurement-sets/IGVFDS2561XUTA/",
104            "accession": "IGVFDS2561XUTA",
105            "aliases": [
106                "igvf:corces_measurementSet_X033_G4_RNA"
107            ],
108            "file_set_type": "experimental data",
109            "lab": {
110                "title": "Ryan Corces, Gladstone Institute UCSF"
111            },
112            "preferred_assay_title": "10x multiome",
113            "status": "preview",
114            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
115        },
116        {
117            "@id": "/measurement-sets/IGVFDS0968QEUL/",
118            "accession": "IGVFDS0968QEUL",
119            "aliases": [
120                "igvf:corces_measurementSet_X033_G5_ATAC"
121            ],
122            "file_set_type": "experimental data",
123            "lab": {
124                "title": "Ryan Corces, Gladstone Institute UCSF"
125            },
126            "preferred_assay_title": "10x multiome",
127            "status": "preview",
128            "summary": "single-nucleus ATAC-seq (10x multiome)"
129        },
130        {
131            "@id": "/measurement-sets/IGVFDS3955MWJB/",
132            "accession": "IGVFDS3955MWJB",
133            "aliases": [
134                "igvf:corces_measurementSet_X033_G5_RNA"
135            ],
136            "file_set_type": "experimental data",
137            "lab": {
138                "title": "Ryan Corces, Gladstone Institute UCSF"
139            },
140            "preferred_assay_title": "10x multiome",
141            "status": "preview",
142            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
143        },
144        {
145            "@id": "/measurement-sets/IGVFDS9357CKRJ/",
146            "accession": "IGVFDS9357CKRJ",
147            "aliases": [
148                "igvf:corces_measurementSet_X033_G2_ATAC"
149            ],
150            "file_set_type": "experimental data",
151            "lab": {
152                "title": "Ryan Corces, Gladstone Institute UCSF"
153            },
154            "preferred_assay_title": "10x multiome",
155            "status": "preview",
156            "summary": "single-nucleus ATAC-seq (10x multiome)"
157        },
158        {
159            "@id": "/measurement-sets/IGVFDS0990FCGR/",
160            "accession": "IGVFDS0990FCGR",
161            "aliases": [
162                "igvf:corces_measurementSet_X033_G2_RNA"
163            ],
164            "file_set_type": "experimental data",
165            "lab": {
166                "title": "Ryan Corces, Gladstone Institute UCSF"
167            },
168            "preferred_assay_title": "10x multiome",
169            "status": "preview",
170            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
171        },
172        {
173            "@id": "/measurement-sets/IGVFDS5732JSYU/",
174            "accession": "IGVFDS5732JSYU",
175            "aliases": [
176                "igvf:corces_measurementSet_X033_G3_ATAC"
177            ],
178            "file_set_type": "experimental data",
179            "lab": {
180                "title": "Ryan Corces, Gladstone Institute UCSF"
181            },
182            "preferred_assay_title": "10x multiome",
183            "status": "preview",
184            "summary": "single-nucleus ATAC-seq (10x multiome)"
185        },
186        {
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190                "igvf:corces_measurementSet_X033_G3_RNA"
191            ],
192            "file_set_type": "experimental data",
193            "lab": {
194                "title": "Ryan Corces, Gladstone Institute UCSF"
195            },
196            "preferred_assay_title": "10x multiome",
197            "status": "preview",
198            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
199        },
200        {
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203            "aliases": [
204                "igvf:corces_measurementSet_X033_G1_ATAC"
205            ],
206            "file_set_type": "experimental data",
207            "lab": {
208                "title": "Ryan Corces, Gladstone Institute UCSF"
209            },
210            "preferred_assay_title": "10x multiome",
211            "status": "preview",
212            "summary": "single-nucleus ATAC-seq (10x multiome)"
213        },
214        {
215            "@id": "/measurement-sets/IGVFDS0892ESKD/",
216            "accession": "IGVFDS0892ESKD",
217            "aliases": [
218                "igvf:corces_measurementSet_X033_G1_RNA"
219            ],
220            "file_set_type": "experimental data",
221            "lab": {
222                "title": "Ryan Corces, Gladstone Institute UCSF"
223            },
224            "preferred_assay_title": "10x multiome",
225            "status": "preview",
226            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
227        },
228        {
229            "@id": "/measurement-sets/IGVFDS7346XJAT/",
230            "accession": "IGVFDS7346XJAT",
231            "aliases": [
232                "igvf:corces_measurementSet_X033_G7_ATAC"
233            ],
234            "file_set_type": "experimental data",
235            "lab": {
236                "title": "Ryan Corces, Gladstone Institute UCSF"
237            },
238            "preferred_assay_title": "10x multiome",
239            "status": "preview",
240            "summary": "single-nucleus ATAC-seq (10x multiome)"
241        },
242        {
243            "@id": "/measurement-sets/IGVFDS2960OTKR/",
244            "accession": "IGVFDS2960OTKR",
245            "aliases": [
246                "igvf:corces_measurementSet_X033_G7_RNA"
247            ],
248            "file_set_type": "experimental data",
249            "lab": {
250                "title": "Ryan Corces, Gladstone Institute UCSF"
251            },
252            "preferred_assay_title": "10x multiome",
253            "status": "preview",
254            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
255        },
256        {
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258            "accession": "IGVFDS5323SYBV",
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260                "igvf:corces_measurementSet_X033_G8_ATAC"
261            ],
262            "file_set_type": "experimental data",
263            "lab": {
264                "title": "Ryan Corces, Gladstone Institute UCSF"
265            },
266            "preferred_assay_title": "10x multiome",
267            "status": "preview",
268            "summary": "single-nucleus ATAC-seq (10x multiome)"
269        },
270        {
271            "@id": "/measurement-sets/IGVFDS6041EITQ/",
272            "accession": "IGVFDS6041EITQ",
273            "aliases": [
274                "igvf:corces_measurementSet_X033_G8_RNA"
275            ],
276            "file_set_type": "experimental data",
277            "lab": {
278                "title": "Ryan Corces, Gladstone Institute UCSF"
279            },
280            "preferred_assay_title": "10x multiome",
281            "status": "preview",
282            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
283        }
284    ],
285    "institutional_certificates": [
286        {
287            "@id": "/institutional-certificates/f7742e0d-bba4-4ca3-ab80-71c7364f24e7/",
288            "certificate_identifier": "IP115-05",
289            "controlled_access": false,
290            "data_use_limitation_summary": "No limitations",
291            "status": "in progress"
292        }
293    ],
294    "lab": {
295        "@id": "/labs/ryan-corces/",
296        "title": "Ryan Corces, Gladstone Institute UCSF"
297    },
298    "lower_bound_age": 72,
299    "lower_bound_age_in_hours": 630720,
300    "multiplexed_in": [
301        {
302            "@id": "/multiplexed-samples/IGVFSM0223TDNZ/",
303            "accession": "IGVFSM0223TDNZ",
304            "status": "preview"
305        },
306        {
307            "@id": "/multiplexed-samples/IGVFSM7822WDMB/",
308            "accession": "IGVFSM7822WDMB",
309            "status": "preview"
310        },
311        {
312            "@id": "/multiplexed-samples/IGVFSM1587HABQ/",
313            "accession": "IGVFSM1587HABQ",
314            "status": "preview"
315        },
316        {
317            "@id": "/multiplexed-samples/IGVFSM4629RUUR/",
318            "accession": "IGVFSM4629RUUR",
319            "status": "preview"
320        },
321        {
322            "@id": "/multiplexed-samples/IGVFSM9145NGZF/",
323            "accession": "IGVFSM9145NGZF",
324            "status": "preview"
325        },
326        {
327            "@id": "/multiplexed-samples/IGVFSM6502SDXL/",
328            "accession": "IGVFSM6502SDXL",
329            "status": "preview"
330        },
331        {
332            "@id": "/multiplexed-samples/IGVFSM7219TNMN/",
333            "accession": "IGVFSM7219TNMN",
334            "status": "preview"
335        },
336        {
337            "@id": "/multiplexed-samples/IGVFSM0100GAWN/",
338            "accession": "IGVFSM0100GAWN",
339            "status": "preview"
340        }
341    ],
342    "origin_of": [],
343    "parts": [],
344    "pmi": 276,
345    "pmi_units": "minute",
346    "pooled_in": [],
347    "preservation_method": "flash-freezing",
348    "protocols": [
349        "https://www.protocols.io/view/isolation-of-nuclei-from-frozen-tissue-for-snmulti-6uchesw"
350    ],
351    "sample_terms": [
352        {
353            "@id": "/sample-terms/UBERON_0002129/",
354            "status": "preview",
355            "term_name": "cerebellar cortex"
356        }
357    ],
358    "schema_version": "21",
359    "sex": "male",
360    "sorted_fractions": [],
361    "sources": [
362        {
363            "@id": "/sources/banner-health/",
364            "status": "released",
365            "title": "Banner Health"
366        }
367    ],
368    "status": "preview",
369    "submitted_by": {
370        "@id": "/users/c13db3ca-f844-4a69-9056-5fbc4a100f36/",
371        "title": "Ryan Corces"
372    },
373    "summary": "Homo sapiens (male, 72 years) cerebellar cortex tissue associated with cerebral amyloid angiopathy",
374    "taxa": "Homo sapiens",
375    "upper_bound_age": 72,
376    "upper_bound_age_in_hours": 630720,
377    "uuid": "8d660180-5c4c-4ff7-bc18-45fe55750519",
378    "virtual": false
379}