Pl 2025 07 02

src/linkml/include_schema.yaml

@@ -108,7 +108,6 @@ classes:
         description: Expected number of participants in this Dataset (or actual number, if data has been submitted to INCLUDE DCC). If additional explanation is needed, please add to Dataset Description field.
       dataType:
         description: Specific type of data contained in Dataset; pipe-separated if multiple (e.g. Preprocessed metabolite relative abundance, Absolute protein concentration, Aligned reads, Simple nucleotide variations, GVCF, Gene expression quantifications, Gene fusions, Somatic copy number variations, Somatic structural variations)
-        multivalued: true
       experimentalStrategy:
         description: Experimental method used to obtain data in Dataset; pipe-separated if multiple (e.g. Whole genome sequencing, RNAseq, Multiplex immunoassay, Mass spec metabolomics)
         multivalued: true
@@ -135,7 +134,23 @@ classes:
         range: DataFile
       datasetGlobalId:
         range: Dataset
-
+  ParticipantDataFileManifest:
+    definition_uri: include:ParticipantDataFileManifest
+    description: List of Participants in DataFiles with multiple Participants
+    title: Participant-DataFile Manifest
+    slots:
+    - studyCode
+    - participantExternalId
+    - fileName
+    #TODO: add Dictonary File Name & Global ID
+    slot_usage:
+      # Reference Slots
+      studyCode:
+        range: Study
+      fileGlobalId:
+        range: DataFile
+      datasetGlobalId:
+        range: Dataset
   Participant:
     definition_uri: include:Participant
     description: Demographic and clinical information about the participant
@@ -236,8 +251,9 @@ classes:
     title: Data File
     slots:
     - studyCode
-    - participantGlobalId #usage of this field in multi-participant files is TBD
-    - participantExternalId #usage of this field in multi-participant files is TBD
+    - participantGlobalId 
+    - participantExternalId 
+    - participantDataFileManifestLocation
     - sampleGlobalId #usage of this field in multi-sample files is TBD
     - sampleExternalId #usage of this field in multi-sample files is TBD
     - fileName
@@ -837,6 +853,11 @@ slots:
     description: Whether or not the specific Container is potentially available for sharing through the Virtual Biorepository
     title: Container Availability
     range: enum_Availability
+  participantDataFileManifestLocation:
+    definition_uri: include:participantDataFileManifestLocation
+    description: Location of Participant-DataFile Manifest, if file contains multiple Participants
+    title: Participant-DataFile Manifest Location
+    range: string
   fileName:
     definition_uri: include:fileName
     description: Name of file, assigned by data contributor
@@ -888,6 +909,7 @@ slots:
     definition_uri: include:dataType
     title: Data Type
     range: string
+    multivalued: true
     #slot_usage
   experimentalStrategy:
     definition_uri: include:experimentalStrategy
@@ -991,8 +1013,7 @@ enums:
         title: ECODS
       exceeds:
         title: EXcEEDS
-      htp:
-        title: HTP
+      HTP:
       ibis-ds:
         title: IBIS-DS
       jaki_ds:
@@ -1027,7 +1048,7 @@ enums:
         meaning: mesh:D006402
       neurodevelopment:
         title: Neurodevelopment
-        meaning: 
+        meaning: mesh:D065886
       sleep_wake_disorders:
         title: Sleep Wake Disorders
         meaning: mesh:D012893
@@ -1072,6 +1093,8 @@ enums:
         title: Interventional
       longitudinal:
         title: Longitudinal
+      trial_readiness_study:
+        title: Trial Readiness Study
       tumor_vs_matched_normal:
         title: Tumor vs Matched Normal
   enum_clinicalDataSourceType:
@@ -1134,8 +1157,7 @@ enums:
       other:
         title: Other
         description: GUID generated by other system
-      no_guid:
-        title: No GUID
+      No GUID:
         description: No GUIDs used in this study
   enum_conditionInterpretation:
     permissible_values:
@@ -1226,7 +1248,7 @@ enums:
         description: Proband + one parent
       other:
         title: Other
-        description: Other family structure, e.g. one parent + twins
+        description: Other family structure, eg one parent + twins
       proband_only:
         title: Proband-only
         description: Proband only, no family members participating in study