substantia nigra — IGVFSM5610ZMIM

preview
1{
2    "@context": "/terms/",
3    "@id": "/tissues/IGVFSM5610ZMIM/",
4    "@type": [
5        "Tissue",
6        "Biosample",
7        "Sample",
8        "Item"
9    ],
10    "accession": "IGVFSM5610ZMIM",
11    "age": "78",
12    "age_units": "year",
13    "aliases": [
14        "igvf:corces_tissue_BANN0325_SN_B1-singleplex"
15    ],
16    "audit": {
17        "INTERNAL_ACTION": [
18            {
19                "category": "mismatched status",
20                "detail": "Preview tissue [IGVFSM5610ZMIM](/tissues/IGVFSM5610ZMIM/) 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/IGVFSM5610ZMIM/"
25            },
26            {
27                "category": "missing CCF ID",
28                "detail": "Tissue [IGVFSM5610ZMIM](/tissues/IGVFSM5610ZMIM/) 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/IGVFSM5610ZMIM/"
33            }
34        ]
35    },
36    "award": {
37        "@id": "/awards/HG012076/",
38        "component": "mapping"
39    },
40    "classifications": [
41        "tissue"
42    ],
43    "creation_timestamp": "2025-03-22T21:11:34.274075+00:00",
44    "date_obtained": "2022-10-11",
45    "disease_terms": [
46        {
47            "@id": "/phenotype-terms/DOID_14330/",
48            "status": "in progress",
49            "term_name": "Parkinson's disease"
50        }
51    ],
52    "donors": [
53        {
54            "@id": "/human-donors/IGVFDO4108VCBA/",
55            "accession": "IGVFDO4108VCBA",
56            "ethnicities": [
57                "European"
58            ],
59            "status": "preview"
60        }
61    ],
62    "file_sets": [
63        {
64            "@id": "/measurement-sets/IGVFDS3515HEZA/",
65            "accession": "IGVFDS3515HEZA",
66            "aliases": [
67                "igvf:corces_measurementSet_X008_G1_ATAC"
68            ],
69            "file_set_type": "experimental data",
70            "lab": {
71                "title": "Ryan Corces, Gladstone Institute UCSF"
72            },
73            "preferred_assay_title": "10x multiome",
74            "status": "preview",
75            "summary": "single-nucleus ATAC-seq (10x multiome)"
76        },
77        {
78            "@id": "/measurement-sets/IGVFDS9811IRQC/",
79            "accession": "IGVFDS9811IRQC",
80            "aliases": [
81                "igvf:corces_measurementSet_X008_G1_RNA"
82            ],
83            "file_set_type": "experimental data",
84            "lab": {
85                "title": "Ryan Corces, Gladstone Institute UCSF"
86            },
87            "preferred_assay_title": "10x multiome",
88            "status": "preview",
89            "summary": "single-nucleus RNA sequencing assay (10x multiome)"
90        }
91    ],
92    "institutional_certificates": [
93        {
94            "@id": "/institutional-certificates/f7742e0d-bba4-4ca3-ab80-71c7364f24e7/",
95            "certificate_identifier": "IP115-05",
96            "controlled_access": false,
97            "status": "in progress"
98        }
99    ],
100    "lab": {
101        "@id": "/labs/ryan-corces/",
102        "title": "Ryan Corces, Gladstone Institute UCSF"
103    },
104    "lower_bound_age": 78,
105    "lower_bound_age_in_hours": 683280,
106    "multiplexed_in": [],
107    "origin_of": [],
108    "part_of": "/tissues/IGVFSM7649EDOE/",
109    "parts": [],
110    "pmi": 150,
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, 78 years) substantia nigra tissue associated with Parkinson's disease",
140    "taxa": "Homo sapiens",
141    "upper_bound_age": 78,
142    "upper_bound_age_in_hours": 683280,
143    "uuid": "4446796f-1026-4139-addd-7f3caec4a816",
144    "virtual": false
145}