-
Notifications
You must be signed in to change notification settings - Fork 32
/
cell_line.json
160 lines (160 loc) · 6.21 KB
/
cell_line.json
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
{
"$schema": "http://json-schema.org/draft-07/schema#",
"description": "Information about the cell line or cell culture biomaterial.",
"additionalProperties": false,
"required": [
"describedBy",
"schema_type",
"biomaterial_core",
"type",
"model_organ"
],
"title": "Cell line",
"name": "cell_line",
"type": "object",
"properties": {
"describedBy": {
"description": "The URL reference to the schema.",
"type": "string",
"pattern" : "^(http|https)://schema.(.*?)humancellatlas.org/type/biomaterial/(([0-9]{1,}.[0-9]{1,}.[0-9]{1,})|([a-zA-Z]*?))/cell_line"
},
"schema_version": {
"description": "The version number of the schema in major.minor.patch format.",
"type": "string",
"pattern": "^[0-9]{1,}.[0-9]{1,}.[0-9]{1,}$",
"example": "4.6.1"
},
"schema_type": {
"description": "The type of the metadata schema entity.",
"type": "string",
"enum": [
"biomaterial"
]
},
"provenance" : {
"description": "Provenance information provided by the system.",
"type": "object",
"$ref": "system/provenance.json"
},
"biomaterial_core" : {
"description": "Core biomaterial-level information.",
"type": "object",
"$ref": "core/biomaterial/biomaterial_core.json",
"user_friendly": "Biomaterial core"
},
"supplier": {
"description": "The supplier of the cell line.",
"type": "string",
"example": "HipSci; ATCC",
"user_friendly": "Supplier"
},
"catalog_number": {
"description": "The supplier catalogue number for the cell line.",
"type": "string",
"example": "77650057",
"user_friendly": "Catalog number"
},
"lot_number": {
"description": "The supplier lot or batch number for the cell line.",
"type": "string",
"example": "24.10.14",
"user_friendly": "Lot/batch number"
},
"catalog_url": {
"description": "The supplier catalogue URL for the cell line.",
"type": "string",
"user_friendly": "Catalog URL",
"example": "www.phe-culturecollections.org.uk/products/celllines/ipsc/detail.jsp?refId=77650057&collection=ecacc_ipsc"
},
"cell_cycle": {
"description": "The cell cycle phase if the cell line is synchronized growing cells or the phase is known.",
"type": "object",
"$ref": "module/ontology/cell_cycle_ontology.json",
"user_friendly": "Cell cycle"
},
"type": {
"description": "The type of cell line.",
"type": "string",
"enum": [
"primary",
"immortalized",
"stem cell",
"stem cell-derived",
"induced pluripotent",
"synthetic"
],
"example": "Should be one of: primary, immortalized, stem cell, stem cell-derived, induced pluripotent, or synthetic.",
"user_friendly": "Cell line type"
},
"model_organ": {
"description": "Organ for which this cell line is a model.",
"type": "object",
"$ref": "module/ontology/organ_ontology.json",
"user_friendly": "Organ model"
},
"cell_morphology": {
"description": "Features relating to the morphology of the cells.",
"type": "object",
"$ref": "module/biomaterial/cell_morphology.json",
"user_friendly": "Cell morphology"
},
"growth_conditions": {
"description": "Features relating to the growth and/or maintenance of the cell lines.",
"type": "object",
"$ref": "module/biomaterial/growth_conditions.json",
"user_friendly": "Growth conditions"
},
"confluency": {
"description": "The percent a plate surface is covered by cells.",
"type": "number",
"example": 60,
"user_friendly": "Percent confluency"
},
"cell_type": {
"description": "The cell type that the cell line represents.",
"type": "object",
"$ref": "module/ontology/cell_type_ontology.json",
"user_friendly": "Cell type"
},
"karyotype": {
"description": "The karyotype of the cell line.",
"type": "string",
"user_friendly": "Karyotype",
"example": "sex chromosome complement of XY; del(2) (q11)"
},
"tissue": {
"description": "The tissue that the cell line was derived from.",
"type": "object",
"$ref": "module/ontology/organ_part_ontology.json",
"user_friendly": "Tissue"
},
"date_established": {
"description": "Date when the cell line was established.",
"type": "string",
"pattern": "^((19|20)\\d\\d){1}([- \\./][01]\\d){0,1}([- \\./][0-3]\\d){0,1}$",
"user_friendly": "Date established",
"example": "2017-03-19; 2002/03; 1995",
"guidelines": "Enter the date established in date format: yyyy-mm-dd. Supplying partial date is allowed."
},
"disease": {
"description": "Short description of any disease association to the cell type.",
"type": "object",
"$ref": "module/ontology/disease_ontology.json",
"user_friendly": "Disease"
},
"genus_species": {
"description": "The scientific binomial name for the species of the cell line.",
"type" : "array",
"items":{
"$ref": "module/ontology/species_ontology.json"
},
"user_friendly": "Genus species"
},
"publication": {
"description": "A publication that cites the cell line creation.",
"type": "object",
"$ref": "module/project/publication.json",
"user_friendly": "Publication"
}
}
}