Last modified by lzehl on 2021/07/02 17:06
From version 22.1
edited by lzehl
on 2021/02/22 18:58
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To version 6.1
edited by lzehl
on 2021/02/18 17:38
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Summary

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4 4  The openMINDS metadata models all consist of modular connectable metadata schemas. Each schema can be referenced by it's type and defines properties (including their expected value) for a set of related metadata.
5 5  
6 6  (% style="text-align: justify;" %)
7 -A short overview for each openMINDS metadata model can be found below, including links to full HTML descriptions for all schemas and links to available metadata instances for selected schemas.
7 +Please find the HTML description for all schemas of each openMINDS metadata model in the corresponding sub-pages. A short overview for each openMINDS metadata model can be found below.
8 8  
9 9  (% style="text-align: justify;" %)
10 10  Note that all metadata models are licensed under the MIT license.
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12 12  
13 13  === openMINDS core ===
14 14  
15 -(% style="text-align: justify;" %)
16 -The openMINDS core metadata model contains schemas that can be used to describe the general origin, resource location, and content of research products in the field of neuroscience. Currently ( Feb 2021) this metadata model comprises 37 usable schemas, grouped into five classes:
15 +The openMINDS core metadata model contains schemas that can be used to describe the general origin, resource location, and content of research products in the field of neuroscience. Currently this metadata model comprises 37 usable schemas:
17 17  
18 -(% style="text-align: right;" %)
19 -(% class="small" style="color:#7f8c8d" %)Click on a schema to discover it's full HTML description.
17 +* Affiliation
18 +* ContactInformation
19 +* Contribution
20 +* Organization
21 +* Person
22 +* ContentType
23 +* Copyright
24 +* FileBundle
25 +* FileInstance
26 +* FileRepository
27 +* Hash
28 +* License
29 +* DigitalIdentifier
30 +* DigitalIdentifierSchema
31 +* Funding
32 +* QuantitativeValue
33 +* QuantitativeValueRange
34 +* Dataset
35 +* DatasetVersion
36 +* MetaDataModel
37 +* MetaDataModelVersion
38 +* Model
39 +* ModelVersion
40 +* Project
41 +* Software
42 +* SoftwareVersion
43 +* ParameterSetting
44 +* Protocol
45 +* ProtocolExecution
46 +* Subject
47 +* SubjectGroup
48 +* SubjectGroupState
49 +* SubjectState
50 +* TissueSample
51 +* TissueSampleCollection
52 +* TissueSampleCollectionState
53 +* TissueSampleState
20 20  
21 -{{container layoutStyle="columns"}}
22 -(((
23 -(% class="small" %)
24 -**ACTORS**
25 -Affiliation
26 -ContactInformation
27 -Contribution
28 -Organization
29 -Person
30 -(% class="small" %)
31 -**DATA**
32 -ContentType*
33 -Copyright
34 -FileBundle
35 -FileInstance
36 -FileRepository
37 -Hash
38 -License*
39 -)))
40 -(((
41 -(% class="small" %)
42 -**MISCELLANEOUS**
43 -DigitalIdentifier
44 -DigitalIdentifierSchema*
45 -Funding
46 -QuantitativeValue
47 -QuantitativeValueRange
48 -(% class="small" %)
49 -**PRODUCTS**
50 -Dataset
51 -DatasetVersion
52 -MetaDataModel
53 -MetaDataModelVersion
54 -Model
55 -ModelVersion
56 -Project
57 -Software
58 -SoftwareVersion
59 -)))
60 -(((
61 -(% class="small" %)
62 -**RESEARCH**
63 -ParameterSetting
64 -Protocol
65 -ProtocolExecution
66 -Subject
67 -SubjectGroup
68 -SubjectGroupState
69 -SubjectState
70 -TissueSample
71 -TissueSampleCollection
72 -TissueSampleCollectionState
73 -TissueSampleState
74 -)))
75 -{{/container}}
76 -
77 -(% class="wikigeneratedid" style="text-align: justify;" %)
78 -In case of EBRAINS, metadata representations (instances) of the schemas marked with an asterisk are centrally defined and maintained on a separate GitHub to guarantee more consistency across the database instances of the Knowledge Graph (cf. section openMINDS instances).
79 -
80 -(% class="wikigeneratedid" style="text-align: justify;" %)
81 -For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
82 -
83 -(% class="wikigeneratedid" %)
84 -[[https:~~/~~/github.com/HumanBrainProject/openMINDS_core>>https://github.com/HumanBrainProject/openMINDS_core||rel="noopener noreferrer" target="_blank"]]
85 -
86 86  === openMINDS SANDS ===
87 87  
88 -(% style="text-align: justify;" %)
89 -The openMINDS SANDS (**S**patial **A**nchoring for **N**euroscience **D**ata **S**tructures) metadata model contains schemas that can be used to capture the anatomical location of neuroscience data as well as to identify and highlight commonly used reference brain atlases and coordinate spaces. Currently (Feb 2021) this metadata model comprises 12 metadata schemas:
57 +xxx
90 90  
91 -(% style="text-align: right;" %)
92 -(% class="small" style="color:#7f8c8d" %)Click on a schema to discover it's full HTML description.
59 +=== openMINDS controlledTerms ===
93 93  
94 -{{container layoutStyle="columns"}}
95 -(((
96 -(% class="small" %)
97 -AnatomicalEntity
98 -AnatomicalEntityRelation
99 -Annotation
100 -AtlasTerminology
101 -)))
102 -(((
103 -(% class="small" %)
104 -BrainAtlas
105 -BrainAtlasVersion
106 -CoordinatePoint
107 -CoordinateSpace
108 -)))
109 -(((
110 -(% class="small" %)
111 -Electrode
112 -ElectrodeArray
113 -ElectrodeContact
114 -Image
115 -)))
116 -{{/container}}
61 +xxx
117 117  
118 -(% class="wikigeneratedid" style="text-align: justify;" %)
119 -For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
120 -
121 -(% class="wikigeneratedid" %)
122 -[[https:~~/~~/github.com/HumanBrainProject/openMINDS_SANDS>>https://github.com/HumanBrainProject/openMINDS_SANDS]]
123 -
124 -=== openMINDS controlledTerms - schemas ===
125 -
126 -(% style="text-align: justify;" %)
127 -The openMINDS controlledTerms metadata model contains schemas that ensure consistent registration of well-defined terms, including linkages to existing ontological terms where applicable. Currently (Feb 2021) this metadata model comprises 38 nearly identical schemas:
128 -
129 -(% style="text-align: right;" %)
130 -(% class="small" style="color:#7f8c8d" %)Click on a schema to discover it's full HTML description.
131 -
132 -{{container layoutStyle="columns"}}
133 -(((
134 -(% class="small" %)
135 -AgeCategory
136 -AnatomicalAxesOrientation
137 -BehavioralTask
138 -BiologicalSex
139 -CellType
140 -ContributionType
141 -CriteriaQualityType
142 -DatasetType
143 -Disease
144 -DiseaseModel
145 -EthicsAssessment
146 -FileBundleGrouping
147 -FileUsageRole
148 -)))
149 -(((
150 -(% class="small" %)
151 -Genotype
152 -Language
153 -Laterality
154 -MetaDataModelType
155 -Modality
156 -ModelAbstractionLevel
157 -ModelScope
158 -OperatingDevice
159 -OperatingSystem
160 -Organ
161 -Phenotype
162 -PreparationType
163 -ProductAccessibility
164 -)))
165 -(((
166 -(% class="small" %)
167 -ProgrammingLanguage
168 -QualitativeOverlap
169 -SoftwareApplicationCategory
170 -SoftwareFeature
171 -Species
172 -Strain
173 -Technique
174 -TermSuggestion*
175 -Terminology
176 -TissueSampleType
177 -TypeOfUncertainty
178 -UnitOfMeasurement
179 -)))
180 -{{/container}}
181 -
182 -(% style="text-align: justify;" %)
183 -Except for TermSuggestion (marked with an asterisk), the openMINDS controlledTerms metadata schemas differ only in their type which defines the name of the terminology the correspondingly controlled terms are registered to (cf. openMINDS controlledTerms - terminologies).
184 -
185 -(% style="text-align: justify;" %)
186 -Compared to these schemas, the TermSuggestion has one additional property ("terminology") where users can state to which terminology the new suggested (not yet controlled) term belongs to. Within the EBRAINS Knowledge Graph, the metadata representations for TermSuggestion will be regularly reviewed by the openMINDS development team in order to integrate these community driven suggestions into the controlledTerms terminologies and corresponding ontology (where applicable).
187 -
188 -(% class="wikigeneratedid" style="text-align: justify;" %)
189 -For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
190 -
191 -(% class="wikigeneratedid" %)
192 -[[https:~~/~~/github.com/HumanBrainProject/openMINDS_controlledTerms>>https://github.com/HumanBrainProject/openMINDS_controlledTerms]]
193 -
194 -=== openMINDS controlledTerms - terminologies ===
195 -
196 -The openMINDS instances repository holds a collection of metadata representations (instances) of selected schemas which content should be more controlled to ensure their consistent definition and usage for the entire EBRAINS Knowledge Graph. Currently the repository holds collections for the following schemas:
197 -
198 -(% style="text-align: right;" %)
199 -(% class="small" style="color:#7f8c8d" %)Click on a schema to discover the correspondingly, available instances (including their Knowledge Graph ID).
200 -
201 -{{container layoutStyle="columns"}}
202 -(((
203 -(% class="small" %)
204 -AgeCategory
205 -AnatomicalAxesOrientation
206 -BehavioralTask
207 -BiologicalSex
208 -CellType
209 -ContributionType
210 -CriteriaQualityType
211 -DatasetType
212 -Disease
213 -DiseaseModel
214 -EthicsAssessment
215 -FileBundleGrouping
216 -FileUsageRole
217 -)))
218 -(((
219 -(% class="small" %)
220 -Genotype
221 -Language
222 -Laterality
223 -MetaDataModelType
224 -Modality
225 -ModelAbstractionLevel
226 -ModelScope
227 -OperatingDevice
228 -OperatingSystem
229 -Organ
230 -Phenotype
231 -PreparationType
232 -ProductAccessibility
233 -)))
234 -(((
235 -(% class="small" %)
236 -ProgrammingLanguage
237 -QualitativeOverlap
238 -SoftwareApplicationCategory
239 -SoftwareFeature
240 -Species
241 -Strain
242 -Technique
243 -Terminology
244 -TissueSampleType
245 -TypeOfUncertainty
246 -UnitOfMeasurement
247 -)))
248 -{{/container}}
249 -
250 250  === openMINDS instances ===
251 251  
252 -The openMINDS instances repository holds a collection of metadata representations (instances) of selected schemas which content should be more controlled to ensure their consistent definition and usage for the entire EBRAINS Knowledge Graph. Currently the repository holds collections for the following schemas:
253 -
254 -(% style="text-align: right;" %)
255 -(% class="small" style="color:#7f8c8d" %)Click on a schema to discover the correspondingly, available instances (including their Knowledge Graph ID).
256 -
257 -{{container layoutStyle="columns"}}
258 -(((
259 -(% class="small" %)
260 -contentType
261 -)))
262 -(((
263 -(% class="small" %)
264 -License
265 -)))
266 -(((
267 -(% class="small" %)
268 -DigitalIdentifierSchema
269 -)))
270 -{{/container}}
271 -
272 -(% class="wikigeneratedid" style="text-align: justify;" %)
273 -For details, contributing or reviewing the openMINDS instances please checkout as well the corresponding GitHub repository:
274 -
275 -(% class="wikigeneratedid" %)
276 -[[https:~~/~~/github.com/HumanBrainProject/openMINDS_instances>>https://github.com/HumanBrainProject/openMINDS_instances]]
65 +xxx
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openMINDS