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1		-XWiki.lzehl
	1	+XWiki.oschmid

Content

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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		-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.
	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.
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;" %)
15	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 ( Feb 2021) this metadata model comprises 37 usable schemas, grouped into five classes:
16	16
	18	+(% style="text-align: right;" %)
	19	+(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description.
	20	+{{html}}<script>
	21	+function resize(evt){
	22	+alert(evt);
	23	+}
	24	+</script>
	25	+
	26	+<iframe src="https://humanbrainproject.github.io/openMINDS/core.html" width="100%" style="border:0; height: 28em" onload="resize"/>{{/html}}
	27	+
	28	+(% class="wikigeneratedid" style="text-align: justify;" %)
	29	+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).
	30	+
	31	+(% class="wikigeneratedid" style="text-align: justify;" %)
	32	+For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
	33	+
	34	+(% class="wikigeneratedid" %)
	35	+[[https:~~/~~/github.com/HumanBrainProject/openMINDS_core>>https://github.com/HumanBrainProject/openMINDS_core||rel="noopener noreferrer" target="_blank"]]
	36	+
	37	+=== openMINDS SANDS ===
	38	+
	39	+(% style="text-align: justify;" %)
	40	+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:
	41	+
	42	+(% style="text-align: right;" %)
	43	+(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description.
	44	+{{html}}<iframe src="https://humanbrainproject.github.io/openMINDS/SANDS.html" width="100%" style="border:0; height: 8em"/>{{/html}}
	45	+
	46	+(% class="wikigeneratedid" style="text-align: justify;" %)
	47	+For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
	48	+
	49	+(% class="wikigeneratedid" %)
	50	+[[https:~~/~~/github.com/HumanBrainProject/openMINDS_SANDS>>https://github.com/HumanBrainProject/openMINDS_SANDS]]
	51	+
	52	+=== openMINDS controlledTerms - schemas ===
	53	+
	54	+(% style="text-align: justify;" %)
	55	+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:
	56	+
	57	+(% style="text-align: right;" %)
	58	+(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description.
	59	+{{html}}<iframe src="https://humanbrainproject.github.io/openMINDS/controlledTerms.html" width="100%" style="border:0; height: 25em"/>{{/html}}
	60	+
	61	+(% style="text-align: justify;" %)
	62	+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).
	63	+
	64	+(% style="text-align: justify;" %)
	65	+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).
	66	+
	67	+(% class="wikigeneratedid" style="text-align: justify;" %)
	68	+For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
	69	+
	70	+(% class="wikigeneratedid" %)
	71	+[[https:~~/~~/github.com/HumanBrainProject/openMINDS_controlledTerms>>https://github.com/HumanBrainProject/openMINDS_controlledTerms]]
	72	+
	73	+=== openMINDS controlledTerms - terminologies ===
	74	+
	75	+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:
	76	+
	77	+(% style="text-align: right;" %)
	78	+(% class="small" style="color:#7f8c8d" %)//**Coming soon:** //Click on a schema to discover its available instances.
	79	+
17	17	{{container layoutStyle="columns"}}
18	18	(((
19	19	(% class="small" %)
20		-**ACTORS**
21		-Affiliation
22		-ContactInformation
23		-Contribution
24		-Organization
25		-Person
26		-(% class="small" %)
27		-**DATA**
28		-ContentType
29		-Copyright
30		-FileBundle
31		-FileInstance
32		-FileRepository
33		-Hash
34		-License
	83	+AgeCategory
	84	+AnatomicalAxesOrientation
	85	+BehavioralTask
	86	+BiologicalSex
	87	+CellType
	88	+ContributionType
	89	+CriteriaQualityType
	90	+DatasetType
	91	+Disease
	92	+DiseaseModel
	93	+EthicsAssessment
	94	+FileBundleGrouping
	95	+FileUsageRole
35	35	)))
36	36	(((
37	37	(% class="small" %)
38		-**MISCELLANEOUS**
39		-DigitalIdentifier
40		-DigitalIdentifierSchema
41		-Funding
42		-QuantitativeValue
43		-QuantitativeValueRange
44		-(% class="small" %)
45		-**PRODUCTS**
46		-Dataset
47		-DatasetVersion
48		-MetaDataModel
49		-MetaDataModelVersion
50		-Model
51		-ModelVersion
52		-Project
53		-Software
54		-SoftwareVersion
	99	+Genotype
	100	+Language
	101	+Laterality
	102	+MetaDataModelType
	103	+Modality
	104	+ModelAbstractionLevel
	105	+ModelScope
	106	+OperatingDevice
	107	+OperatingSystem
	108	+Organ
	109	+Phenotype
	110	+PreparationType
	111	+ProductAccessibility
55	55	)))
56	56	(((
57	57	(% class="small" %)
58		-**RESEARCH**
59		-ParameterSetting
60		-Protocol
61		-ProtocolExecution
62		-Subject
63		-SubjectGroup
64		-SubjectGroupState
65		-SubjectState
66		-TissueSample
67		-TissueSampleCollection
68		-TissueSampleCollectionState
69		-TissueSampleState
	115	+ProgrammingLanguage
	116	+QualitativeOverlap
	117	+SoftwareApplicationCategory
	118	+SoftwareFeature
	119	+Species
	120	+Strain
	121	+Technique
	122	+Terminology
	123	+TissueSampleType
	124	+TypeOfUncertainty
	125	+UnitOfMeasurement
70	70	)))
71	71	{{/container}}
72	72
73		-=== openMINDS SANDS ===
	129	+=== openMINDS instances ===
74	74
75		-The openMINDS SANDS (Spatial Anchoring for Neuroscience Data Structures) 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:
	131	+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:
76	76
	133	+(% style="text-align: right;" %)
	134	+(% class="small" style="color:#7f8c8d" %)//**Coming soon:**// Click on a schema to discover its available instances.
	135	+
77	77	{{container layoutStyle="columns"}}
78	78	(((
79	79	(% class="small" %)
80		-AnatomicalEntity
81		-AnatomicalEntityRelation
82		-Annotation
83		-AtlasTerminology
	139	+contentType
84	84	)))
85	85	(((
86	86	(% class="small" %)
87		-BrainAtlas
88		-BrainAtlasVersion
89		-CoordinatePoint
90		-CoordinateSpace
	143	+License
91	91	)))
92	92	(((
93	93	(% class="small" %)
94		-Electrode
95		-ElectrodeArray
96		-ElectrodeContact
97		-Image
	147	+DigitalIdentifierSchema
98	98	)))
99	99	{{/container}}
100	100
101		-=== openMINDS controlledTerms ===
	151	+(% class="wikigeneratedid" style="text-align: justify;" %)
	152	+For details, contributing or reviewing the openMINDS instances please checkout as well the corresponding GitHub repository:
102	102
103		-The openMINDS controlledTerms metadata model contains schemas that ensure consistent registration of well-defined terms, including linkages to existing ontological terms where applicable.
104		-
105		-=== openMINDS instances ===
106		-
107		-xxx
	154	+(% class="wikigeneratedid" %)
	155	+[[https:~~/~~/github.com/HumanBrainProject/openMINDS_instances>>https://github.com/HumanBrainProject/openMINDS_instances]]