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October CCKP release - term updates #150

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Merged
merged 6 commits into from
Oct 31, 2024
Merged

October CCKP release - term updates #150

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cc7032d
Add Light Sheet Microscopy
Bankso Oct 1, 2024
88089a2
Add Not Applicable
Bankso Oct 1, 2024
f8259be
Add Patient Advocacy
Bankso Oct 1, 2024
6e63007
Update valid values in model CSVs
Bankso Oct 1, 2024
4dccd62
Update all_valid_values.csv
Bankso Oct 1, 2024
1416497
build jsonld
Oct 31, 2024
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3 changes: 3 additions & 0 deletions all_valid_values.csv
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Original file line number Diff line number Diff line change
Expand Up @@ -36,6 +36,7 @@ dataset_species,Worm,
dataset_species,Yeast,
dataset_species,Fruit Fly,Drosophila melanogaster
dataset_species,Zebrafish,Danio rerio
dataset_species,Not Applicable,
tumorType,Cutaneous Melanoma,"Melanoma of Skin, Malignant Melanoma of Skin, Skin Melanoma, Malignant Melanoma (of Skin), Stage Unspecified, Cutaneous (Skin) Melanoma, CM, Skin, Melanoma, Skin Cutaneous Melanoma, Melanoma of the Skin, Malignant Melanoma of Skin Stage Unspecified, Malignant Cutaneous Melanoma"
tumorType,Acinar Cell Carcinoma,"Acinar Carcinoma, Acinar adenocarcinoma, Acinar Cell Adenocarcinoma, Acinar carcinoma, Acinic Cell Carcinoma, Acinic Cell Adenocarcinoma, Acinar Adenocarcinoma, Acinic cell adenocarcinoma"
tumorType,Acute Lymphoblastic Leukemia,"Precursor Lymphoblasic Leukemia, Acute lymphatic leukemia, Precursor Lymphoblastic Leukemia, Acute Lymphoid Leukemia, Precursor Cell Lymphoblastic Leukemia, Acute Lymphoblastic Leukemia (ALL), Acute lymphoblastic leukemia (ALL), Acute lymphoblastic leukemia, precursor cell type, Lymphoblastic Leukemia, ALL, Acute Lymphogenous Leukemia, ALL - Acute Lymphocytic Leukemia, Acute lymphoid leukemia, Acute Lymphocytic Leukaemia, Acute Lymphocytic Leukemia, ALL_TYPE, Acute Lymphocytic Leukemias, Acute lymphocytic leukemia, acute lymphocytic leukemia"
Expand Down Expand Up @@ -994,6 +995,7 @@ assay,Tuba-Seq,
assay,SDS-PAGE,
assay,Cell Fractionation,
assay,Multiscale Light Sheet Microscopy,
assay,Light Sheet Microscopy,
processLevel,Level 1,
processLevel,Level 2,
processLevel,Level 3,
Expand Down Expand Up @@ -1060,6 +1062,7 @@ ed_topic,Statistics and Probability,
ed_topic,Chemistry,
ed_topic,Physics,
ed_topic,Systems Biology,
ed_topic,Patient Advocacy,
ed_activity_type,Activity/Lab,
ed_activity_type,Assessment,
ed_activity_type,Case Study,
Expand Down
18 changes: 9 additions & 9 deletions mc2.model.csv
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284 changes: 183 additions & 101 deletions mc2.model.jsonld
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Original file line number Diff line number Diff line change
Expand Up @@ -296,6 +296,9 @@
},
{
"@id": "bts:Zebrafish"
},
{
"@id": "bts:NotApplicable"
}
],
"sms:displayName": "Biospecimen Species",
Expand Down Expand Up @@ -3270,6 +3273,119 @@
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:NotApplicable",
"@type": "rdfs:Class",
"rdfs:comment": "TBD",
"rdfs:label": "NotApplicable",
"rdfs:subClassOf": [
{
"@id": "bts:TumorSubtype"
},
{
"@id": "bts:BiospecimenComposition"
},
{
"@id": "bts:FileLevel"
},
{
"@id": "bts:DSPDatasetLevel"
},
{
"@id": "bts:SurvivalOutcome"
},
{
"@id": "bts:TumorGrade"
},
{
"@id": "bts:ImagingAssayType"
},
{
"@id": "bts:BiospecimenSpecies"
},
{
"@id": "bts:DatasetSpecies"
},
{
"@id": "bts:FileSpecies"
},
{
"@id": "bts:DSPDatasetSpecies"
},
{
"@id": "bts:InstitutionLocationState"
},
{
"@id": "bts:ToolInputFormat"
},
{
"@id": "bts:ToolOutputFormat"
},
{
"@id": "bts:ToolInputData"
},
{
"@id": "bts:ToolOutputData"
},
{
"@id": "bts:KnownMetastasisSites"
},
{
"@id": "bts:SiteofResectionorBiopsy"
},
{
"@id": "bts:SiteofOrigin"
},
{
"@id": "bts:DatasetTissue"
},
{
"@id": "bts:FileTissue"
},
{
"@id": "bts:PublicationTissue"
},
{
"@id": "bts:DSPDatasetTissue"
},
{
"@id": "bts:ToolOperation"
},
{
"@id": "bts:BiospecimenTumorType"
},
{
"@id": "bts:DatasetTumorType"
},
{
"@id": "bts:FileTumorType"
},
{
"@id": "bts:PublicationTumorType"
},
{
"@id": "bts:DSPDatasetTumorType"
},
{
"@id": "bts:DatasetAssay"
},
{
"@id": "bts:FileAssay"
},
{
"@id": "bts:PublicationAssay"
},
{
"@id": "bts:DSPDatasetAssay"
}
],
"schema:isPartOf": {
"@id": "http://schema.biothings.io"
},
"sms:displayName": "Not Applicable",
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:M",
"@type": "rdfs:Class",
Expand Down Expand Up @@ -7046,107 +7162,6 @@
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:NotApplicable",
"@type": "rdfs:Class",
"rdfs:comment": "TBD",
"rdfs:label": "NotApplicable",
"rdfs:subClassOf": [
{
"@id": "bts:TumorSubtype"
},
{
"@id": "bts:BiospecimenComposition"
},
{
"@id": "bts:FileLevel"
},
{
"@id": "bts:DSPDatasetLevel"
},
{
"@id": "bts:SurvivalOutcome"
},
{
"@id": "bts:TumorGrade"
},
{
"@id": "bts:ImagingAssayType"
},
{
"@id": "bts:InstitutionLocationState"
},
{
"@id": "bts:ToolInputFormat"
},
{
"@id": "bts:ToolOutputFormat"
},
{
"@id": "bts:ToolInputData"
},
{
"@id": "bts:ToolOutputData"
},
{
"@id": "bts:KnownMetastasisSites"
},
{
"@id": "bts:SiteofResectionorBiopsy"
},
{
"@id": "bts:SiteofOrigin"
},
{
"@id": "bts:DatasetTissue"
},
{
"@id": "bts:FileTissue"
},
{
"@id": "bts:PublicationTissue"
},
{
"@id": "bts:DSPDatasetTissue"
},
{
"@id": "bts:ToolOperation"
},
{
"@id": "bts:BiospecimenTumorType"
},
{
"@id": "bts:DatasetTumorType"
},
{
"@id": "bts:FileTumorType"
},
{
"@id": "bts:PublicationTumorType"
},
{
"@id": "bts:DSPDatasetTumorType"
},
{
"@id": "bts:DatasetAssay"
},
{
"@id": "bts:FileAssay"
},
{
"@id": "bts:PublicationAssay"
},
{
"@id": "bts:DSPDatasetAssay"
}
],
"schema:isPartOf": {
"@id": "http://schema.biothings.io"
},
"sms:displayName": "Not Applicable",
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:OralCavityNeoplasm",
"@type": "rdfs:Class",
Expand Down Expand Up @@ -14845,6 +14860,9 @@
},
{
"@id": "bts:MultiscaleLightSheetMicroscopy"
},
{
"@id": "bts:LightSheetMicroscopy"
}
],
"sms:displayName": "Dataset Assay",
Expand Down Expand Up @@ -24624,6 +24642,32 @@
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:LightSheetMicroscopy",
"@type": "rdfs:Class",
"rdfs:comment": "TBD",
"rdfs:label": "LightSheetMicroscopy",
"rdfs:subClassOf": [
{
"@id": "bts:DatasetAssay"
},
{
"@id": "bts:FileAssay"
},
{
"@id": "bts:PublicationAssay"
},
{
"@id": "bts:DSPDatasetAssay"
}
],
"schema:isPartOf": {
"@id": "http://schema.biothings.io"
},
"sms:displayName": "Light Sheet Microscopy",
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:DatasetSpecies",
"@type": "rdfs:Class",
Expand Down Expand Up @@ -24715,6 +24759,9 @@
},
{
"@id": "bts:Zebrafish"
},
{
"@id": "bts:NotApplicable"
}
],
"sms:displayName": "Dataset Species",
Expand Down Expand Up @@ -33882,6 +33929,9 @@
},
{
"@id": "bts:SystemsBiology"
},
{
"@id": "bts:PatientAdvocacy"
}
],
"sms:displayName": "Resource Topic",
Expand Down Expand Up @@ -37118,6 +37168,23 @@
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:PatientAdvocacy",
"@type": "rdfs:Class",
"rdfs:comment": "TBD",
"rdfs:label": "PatientAdvocacy",
"rdfs:subClassOf": [
{
"@id": "bts:ResourceTopic"
}
],
"schema:isPartOf": {
"@id": "http://schema.biothings.io"
},
"sms:displayName": "Patient Advocacy",
"sms:required": "sms:false",
"sms:validationRules": []
},
{
"@id": "bts:Activity/Lab",
"@type": "rdfs:Class",
Expand Down Expand Up @@ -49279,6 +49346,9 @@
},
{
"@id": "bts:MultiscaleLightSheetMicroscopy"
},
{
"@id": "bts:LightSheetMicroscopy"
}
],
"sms:displayName": "File Assay",
Expand Down Expand Up @@ -49513,6 +49583,9 @@
},
{
"@id": "bts:Zebrafish"
},
{
"@id": "bts:NotApplicable"
}
],
"sms:displayName": "File Species",
Expand Down Expand Up @@ -64533,6 +64606,9 @@
},
{
"@id": "bts:MultiscaleLightSheetMicroscopy"
},
{
"@id": "bts:LightSheetMicroscopy"
}
],
"sms:displayName": "Publication Assay",
Expand Down Expand Up @@ -68927,6 +69003,9 @@
},
{
"@id": "bts:Zebrafish"
},
{
"@id": "bts:NotApplicable"
}
],
"sms:displayName": "DSP Dataset Species",
Expand Down Expand Up @@ -71467,6 +71546,9 @@
},
{
"@id": "bts:MultiscaleLightSheetMicroscopy"
},
{
"@id": "bts:LightSheetMicroscopy"
}
],
"sms:displayName": "DSP Dataset Assay",
Expand Down
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