substantia nigra — IGVFSM7625QSBF

preview
1{
2    "@context": "/terms/",
3    "@id": "/tissues/IGVFSM7625QSBF/",
4    "@type": [
5        "Tissue",
6        "Biosample",
7        "Sample",
8        "Item"
9    ],
10    "accession": "IGVFSM7625QSBF",
11    "age": "73",
12    "age_units": "year",
13    "aliases": [
14        "igvf:corces_tissue_BANN1570_SN"
15    ],
16    "audit": {
17        "INTERNAL_ACTION": [
18            {
19                "category": "mismatched status",
20                "detail": "Preview tissue [IGVFSM7625QSBF](/tissues/IGVFSM7625QSBF/) 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/IGVFSM7625QSBF/"
25            },
26            {
27                "category": "mismatched status",
28                "detail": "Preview tissue [IGVFSM7625QSBF](/tissues/IGVFSM7625QSBF/) 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/IGVFSM7625QSBF/"
33            },
34            {
35                "category": "mismatched status",
36                "detail": "Preview tissue [IGVFSM7625QSBF](/tissues/IGVFSM7625QSBF/) 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/IGVFSM7625QSBF/"
41            },
42            {
43                "category": "missing CCF ID",
44                "detail": "Tissue [IGVFSM7625QSBF](/tissues/IGVFSM7625QSBF/) 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/IGVFSM7625QSBF/"
49            }
50        ]
51    },
52    "award": {
53        "@id": "/awards/HG012076/",
54        "component": "mapping"
55    },
56    "classifications": [
57        "tissue"
58    ],
59    "creation_timestamp": "2025-03-19T04:16:09.609033+00:00",
60    "date_obtained": "2022-10-07",
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/IGVFDO7606UOXI/",
81            "accession": "IGVFDO7606UOXI",
82            "ethnicities": [
83                "European"
84            ],
85            "status": "preview"
86        }
87    ],
88    "file_sets": [],
89    "institutional_certificates": [
90        {
91            "@id": "/institutional-certificates/f7742e0d-bba4-4ca3-ab80-71c7364f24e7/",
92            "certificate_identifier": "IP115-05",
93            "controlled_access": false,
94            "status": "in progress"
95        }
96    ],
97    "lab": {
98        "@id": "/labs/ryan-corces/",
99        "title": "Ryan Corces, Gladstone Institute UCSF"
100    },
101    "lower_bound_age": 73,
102    "lower_bound_age_in_hours": 639480,
103    "multiplexed_in": [],
104    "origin_of": [],
105    "parts": [
106        "/tissues/IGVFSM5461QAGG/",
107        "/tissues/IGVFSM5332CXKW/",
108        "/tissues/IGVFSM9093ETCZ/"
109    ],
110    "pmi": 352,
111    "pmi_units": "minute",
112    "pooled_in": [],
113    "preservation_method": "flash-freezing",
114    "protocols": [
115        "https://www.protocols.io/view/isolation-of-nuclei-from-frozen-tissue-for-snmulti-6uchesw"
116    ],
117    "sample_terms": [
118        {
119            "@id": "/sample-terms/UBERON_0002038/",
120            "status": "preview",
121            "term_name": "substantia nigra"
122        }
123    ],
124    "schema_version": "21",
125    "sex": "male",
126    "sorted_fractions": [],
127    "sources": [
128        {
129            "@id": "/sources/banner-health/",
130            "status": "released",
131            "title": "Banner Health"
132        }
133    ],
134    "status": "preview",
135    "submitted_by": {
136        "@id": "/users/c13db3ca-f844-4a69-9056-5fbc4a100f36/",
137        "title": "Ryan Corces"
138    },
139    "summary": "Homo sapiens (male, 73 years) substantia nigra tissue associated with Parkinson's disease, cerebral amyloid angiopathy, mild cognitive impairment",
140    "taxa": "Homo sapiens",
141    "upper_bound_age": 73,
142    "upper_bound_age_in_hours": 639480,
143    "uuid": "fffd06f2-f8bc-42a4-8e97-3598debec36c",
144    "virtual": false
145}