Add more provenance details

caufieldjh · caufieldjh · commit 2b82f7e71f2e · 2025-03-13T16:56:21.000-04:00
diff --git a/resource/biolink/biolink.md b/resource/biolink/biolink.md
@@ -26,6 +26,8 @@ products:
   id: biolink.model.owl
   name: Biolink Model OWL release
   url: https://w3id.org/biolink/biolink-model.owl.ttl
+  derived_from: biolink
+  original_source: biolink
 - category: DataModelProduct
   compatibility:
   - standard: biolink
@@ -35,6 +37,8 @@ products:
   id: biolink.model.json
   name: Biolink Model JSON release
   url: https://w3id.org/biolink/biolink-model.json
+  derived_from: biolink
+  original_source: biolink
 - category: DataModelProduct
   compatibility:
   - standard: biolink
@@ -44,6 +48,8 @@ products:
   id: biolink.model.graphql
   name: Biolink Model GraphQL release
   url: https://w3id.org/biolink/biolink-model.graphql
+  derived_from: biolink
+  original_source: biolink
 - category: DataModelProduct
   compatibility:
   - standard: biolink
@@ -53,6 +59,8 @@ products:
   id: biolink.model.proto
   name: Biolink Model Protobuf release
   url: https://raw.githubusercontent.com/biolink/biolink-model/refs/heads/master/project/protobuf/biolink_model.proto
+  derived_from: biolink
+  original_source: biolink
 - category: DataModelProduct
   compatibility:
   - standard: biolink
@@ -62,6 +70,8 @@ products:
   id: biolink.model.shacl
   name: Biolink Model SHACL release
   url: https://raw.githubusercontent.com/biolink/biolink-model/refs/heads/master/project/shacl/biolink_model.shacl.ttl
+  derived_from: biolink
+  original_source: biolink
 - category: DataModelProduct
   compatibility:
   - standard: biolink
@@ -71,6 +81,8 @@ products:
   id: biolink.model.shex
   name: Biolink Model ShEx release
   url: https://raw.githubusercontent.com/biolink/biolink-model/refs/heads/master/project/shex/biolink_model.shex
+  derived_from: biolink
+  original_source: biolink
 - category: GraphProduct
   derived_from: automat
   description: Biolink Automat
@@ -79,6 +91,8 @@ products:
   name: biolink_automat
   original_source: biolink
   url: https://stars.renci.org/var/plater/bl-3.1.2/Biolink_Automat/latest/kgx_files
+  derived_from: biolink
+  original_source: biolink
 publications:
 - authors:
   - Unni DR
diff --git a/resource/bioteque/bioteque.md b/resource/bioteque/bioteque.md
@@ -18,6 +18,8 @@ products:
   description: Network embeddings of the Bioteque graph
   url: https://bioteque.irbbarcelona.org/downloads/embeddings
   category: Product
+  derived_from: bioteque
+  original_source: bioteque
 - id: bioteque.code
   name: Bioteque code
   description: >-
@@ -27,6 +29,8 @@ products:
   license:
     label: MIT License
     id: https://opensource.org/licenses/MIT
+  derived_from: bioteque
+  original_source: bioteque
 publications:
 - authors:
   - Fernández-Torras A
diff --git a/resource/chr/chr.md b/resource/chr/chr.md
@@ -20,6 +20,8 @@ products:
   category: DataModelProduct
   url: http://purl.obolibrary.org/obo/chr.owl
   format: owl
+  derived_from: chr
+  original_source: chr
 license:
   label: CC0 1.0
   id: https://creativecommons.org/publicdomain/zero/1.0/
diff --git a/resource/cl-kg/cl-kg.md b/resource/cl-kg/cl-kg.md
@@ -26,6 +26,8 @@ products:
   is_public: true
   is_neo4j: true
   connection_url: cl-kg-neo4j-db.cellgeni.sanger.ac.uk:443
+  derived_from: cl-kg
+  original_source: cl-kg
 ---
 
 CL-KG is a knowledge graph integrating the cell ontology and linked ontologies with hierarchical annotations of single cell transcriptomics data from CellXGene.
diff --git a/resource/drkg/drkg.md b/resource/drkg/drkg.md
@@ -27,6 +27,8 @@ products:
   url: https://dgl-data.s3-us-west-2.amazonaws.com/dataset/DRKG/drkg.tar.gz
   compression: targz
   category: GraphProduct
+  derived_from: drkg
+  original_source: drkg
 ---
 
 Drug Repurposing Knowledge Graph (DRKG)
diff --git a/resource/ecosim/ecosim.md b/resource/ecosim/ecosim.md
@@ -19,6 +19,8 @@ products:
   description: OWL release of ecosim
   category: Product
   format: owl
+  derived_from: ecosim
+  original_source: ecosim
 category: Resource
 ---
 
diff --git a/resource/goldterms/goldterms.md b/resource/goldterms/goldterms.md
@@ -17,6 +17,8 @@ products:
   name: main GOLDTERMS OWL release
   category: Product
   format: owl
+  derived_from: goldterms
+  original_source: goldterms
 repository: https://github.com/cmungall/gold-ontology
 activity_status: active
 category: Resource
diff --git a/resource/gp-kg/gp-kg.md b/resource/gp-kg/gp-kg.md
@@ -19,11 +19,15 @@ products:
   category: GraphProduct
   node_count: 61146
   edge_count: 1246726
+  derived_from: gp-kg
+  original_source: gp-kg
 - id: gp-kg.process.kg-predict
   name: KG-Predict
   description: A computational framework for drug repurposing, used with GP-KG
   url: http://nlp.case.edu/public/data/GPKG-Predict/code/
   category: ProcessProduct
+  derived_from: gp-kg
+  original_source: gp-kg
 publications:
 - authors:
   - Gao Z
diff --git a/resource/hra-kg/hra-kg.md b/resource/hra-kg/hra-kg.md
@@ -20,27 +20,41 @@ products:
   description: The graph representation of the Human Reference Atlas (HRA) dataset, v2.2, Turtle format
   url: https://cdn.humanatlas.io/digital-objects/collection/hra/v2.2/graph.ttl
   category: GraphProduct
+  derived_from: hra-kg
+  original_source: hra-kg
+  format: ttl
 - id: hra-kg.graph.json
   name: HRA KG graph data, v2.2, JSON-LD format
   description: The graph representation of the Human Reference Atlas (HRA) dataset, v2.2, JSON-LD format
   url: https://cdn.humanatlas.io/digital-objects/collection/hra/v2.2/graph.json
   category: GraphProduct
   format: jsonld
+  derived_from: hra-kg
+  original_source: hra-kg
 - id: hra-kg.graph.xml
   name: HRA KG graph data, v2.2, RDF/XML format
   description: The graph representation of the Human Reference Atlas (HRA) dataset, v2.2, RDF/XML format
   url: https://cdn.humanatlas.io/digital-objects/collection/hra/v2.2/graph.xml
   category: GraphProduct
+  derived_from: hra-kg
+  original_source: hra-kg
+  format: rdfxml
 - id: hra-kg.graph.nt
   name: HRA KG graph data, v2.2, N-Triples format
   description: The graph representation of the Human Reference Atlas (HRA) dataset, v2.2, N-Triples format
   url: https://cdn.humanatlas.io/digital-objects/collection/hra/v2.2/graph.nt
   category: GraphProduct
+  derived_from: hra-kg
+  original_source: hra-kg
+  format: ntriples
 - id: hra-kg.graph.nq
   name: HRA KG graph data, v2.2, N-Quads format
   description: The graph representation of the Human Reference Atlas (HRA) dataset, v2.2, N-Quads format
   url: https://cdn.humanatlas.io/digital-objects/collection/hra/v2.2/graph.nq
   category: GraphProduct
+  derived_from: hra-kg
+  original_source: hra-kg
+  format: nquads
 category: KnowledgeGraph
 ---
 
diff --git a/resource/icees-kg/icees-kg.md b/resource/icees-kg/icees-kg.md
@@ -21,6 +21,8 @@ products:
   url: https://stars.renci.org/var/plater/bl-2.1/icees_kgx_files/
   category: GraphProduct
   format: kgx
+  derived_from: icees-kg
+  original_source: icees-kg
 ---
 
 The ICEES-based Exposures Knowledge Graph.
diff --git a/resource/kg-covid-19/kg-covid-19.md b/resource/kg-covid-19/kg-covid-19.md
@@ -22,6 +22,8 @@ products:
   url: https://kghub.io/kg-covid-19/
   category: GraphProduct
   format: kgx
+  derived_from: kg-covid-19
+  original_source: kg-covid-19
 ---
 
 KG-COVID-19: a knowledge graph for COVID-19 and SARS-COV-2.
diff --git a/resource/kg-idg/kg-idg.md b/resource/kg-idg/kg-idg.md
@@ -23,6 +23,8 @@ products:
   url: https://kg-hub.berkeleybop.io/kg-idg/current/kg-microbe.tar.gz
   category: GraphProduct
   format: kgx
+  derived_from: kg-idg
+  original_source: kg-idg
 category: KnowledgeGraph
 ---
 
diff --git a/resource/kg-microbe/kg-microbe.md b/resource/kg-microbe/kg-microbe.md
@@ -24,6 +24,8 @@ products:
   id: kg-microbe.graph.raw
   name: KG-Microbe KGX Graph - Raw
   url: https://kghub.io/kg-microbe/KGMicrobe-raw-20250222.tar.gz
+  derived_from: kg-microbe
+  original_source: kg-microbe
 - category: GraphProduct
   compression: targz
   description: The core KG KG-Microbe-Core with ontologies, organismal traits, and
@@ -32,27 +34,35 @@ products:
   id: kg-microbe.graph.core
   name: KG-Microbe KGX Graph - Core
   url: https://github.com/Knowledge-Graph-Hub/kg-microbe/releases/latest
+  derived_from: kg-microbe
+  original_source: kg-microbe
 - category: GraphProduct
   compression: targz
   description: Core plus human biomedical data (ontologies, CTD, Wallen et al)
   format: kgx
   id: kg-microbe.graph.biomedical
   name: KG-Microbe KGX Graph - Biomedical
   url: https://github.com/Knowledge-Graph-Hub/kg-microbe/releases/latest
+  derived_from: kg-microbe
+  original_source: kg-microbe
 - category: GraphProduct
   compression: targz
   description: Core plus Uniprot genome annotations
   format: kgx
   id: kg-microbe.graph.function
   name: KG-Microbe KGX Graph - Function
   url: https://kghub.io/kg-microbe/KGMicrobe-function-20250222.tar.gz
+  derived_from: kg-microbe
+  original_source: kg-microbe
 - category: GraphProduct
   compression: targz
   description: Biomedical plus Uniprot genome annotations
   format: kgx
   id: kg-microbe.graph.biomedical-function
   name: KG-Microbe KGX Graph - Biomedical-Function
   url: https://kghub.io/kg-microbe/KGMicrobe-biomedical-function-20250222.tar.gz
+  derived_from: kg-microbe
+  original_source: kg-microbe
 - category: GraphProduct
   compression: targz
   derived_from: kg-microbe
diff --git a/resource/kg-monarch/kg-monarch.md b/resource/kg-monarch/kg-monarch.md
@@ -20,6 +20,8 @@ products:
   url: https://kg-hub.berkeleybop.io/kg-monarch/current/kg-monarch.tar.gz
   category: GraphProduct
   format: kgx
+  derived_from: kg-monarch
+  original_source: kg-monarch
 license:
   label: CC0 1.0
   id: https://creativecommons.org/publicdomain/zero/1.0/
diff --git a/resource/kgcl/kgcl.md b/resource/kgcl/kgcl.md
@@ -20,11 +20,15 @@ products:
   description: OWL release of Knowledge Graph Change Language
   category: DataModelProduct
   format: owl
+  derived_from: kgcl
+  original_source: kgcl
 - id: kgcl.model.obo
   name: Knowledge Graph Change Language OBO release
   description: OBO release of Knowledge Graph Change Language
   category: DataModelProduct
   format: obo
+  derived_from: kgcl
+  original_source: kgcl
 license:
   label: CC0 1.0
   id: https://creativecommons.org/publicdomain/zero/1.0/
diff --git a/resource/mixs/mixs.md b/resource/mixs/mixs.md
@@ -23,6 +23,8 @@ products:
   description: OWL release of mixs
   url: https://raw.githubusercontent.com/GenomicsStandardsConsortium/mixs/refs/heads/main/project/owl/mixs.owl.ttl
   category: DataModelProduct
+  derived_from: mixs
+  original_source: mixs
 license:
   label: CC0 1.0
   id: https://creativecommons.org/publicdomain/zero/1.0/
diff --git a/resource/molecular-data-kp/molecular-data-kp.md b/resource/molecular-data-kp/molecular-data-kp.md
@@ -21,19 +21,25 @@ products:
   url: https://molepro.s3.amazonaws.com/nodes.tsv
   category: GraphProduct
   format: kgx
+  derived_from: molecular-data-kp
+  original_source: molecular-data-kp
 - id: molecular-data-kp.graph.edges
   name: Edges for Molecular Data KP
   description: KGX edges for Molecular Data KP
   url: https://molepro.s3.amazonaws.com/edges.tsv
   category: GraphProduct
   format: kgx
+  derived_from: molecular-data-kp
+  original_source: molecular-data-kp
 - id: molecular-data-kp.api
   name: Open API for Molecular Data KP
   description: Open API for Molecular Data KP
   url: https://translator.broadinstitute.org/molecular_data_provider/api
   category: ProgrammingInterface
   is_public: true
   connection_url: https://translator.broadinstitute.org/molecular_data_provider/api
+  derived_from: molecular-data-kp
+  original_source: molecular-data-kp
 license:
   label: MIT License
   id: https://opensource.org/licenses/MIT
diff --git a/resource/neo/neo.md b/resource/neo/neo.md
@@ -21,6 +21,8 @@ products:
   category: Product
   url: http://purl.obolibrary.org/obo/go/noctua/neo.owl
   format: owl
+  derived_from: neo
+  original_source: neo
 category: Resource
 
 ---
diff --git a/resource/np-kg/np-kg.md b/resource/np-kg/np-kg.md
@@ -18,12 +18,16 @@ products:
   description: Merged KG with ontology-grounded KG and literature-based graph as TSV file
   url: https://zenodo.org/records/12536780/files/NP-KG_v3.0.0.tsv?download=1
   category: GraphProduct
+  derived_from: np-kg
+  original_source: np-kg
 - id: np-kg.graph.networkx
   name: NP-KG gpickle
   description: Merged KG with ontology-grounded KG and literature-based graph as NetworkX multidigraph object
   url: https://zenodo.org/records/12536780/files/NP-KG_v3.0.0.gpickle?download=1
   dump_format: gpickle
   category: GraphProduct
+  derived_from: np-kg
+  original_source: np-kg
 license:
   label: CC-BY-4.0
   id: https://creativecommons.org/licenses/by/4.0/
diff --git a/resource/petagraph/petagraph.md b/resource/petagraph/petagraph.md
@@ -17,6 +17,8 @@ products:
   description: A multi-omics biomedical knowledge graph
   url: https://ubkg-downloads.xconsortia.org/
   category: GraphProduct
+  derived_from: petagraph
+  original_source: petagraph
 license:
   label: UMLS
   id: https://www.nlm.nih.gov/databases/umls.html
diff --git a/resource/primekg/primekg.md b/resource/primekg/primekg.md
@@ -22,6 +22,7 @@ products:
   url: https://dataverse.harvard.edu/api/access/datafile/6180620
   category: GraphProduct
   derived_from: primekg
+  original_source: primekg
 license:
   label: MIT License
   id: https://opensource.org/licenses/MIT
diff --git a/resource/reactome/reactome.md b/resource/reactome/reactome.md
@@ -19,6 +19,8 @@ products:
   description: Conversion from BioPAX, human subset
   url: https://s3.amazonaws.com/bbop-sqlite/reactome-hs.db.gz
   category: Product
+  original_source: reactome
+  derived_from: reactome
 category: DataSource
 ---
 
diff --git a/resource/robokop/robokop.md b/resource/robokop/robokop.md
@@ -23,6 +23,8 @@ products:
   id: robokop.graph
   name: ROBOKOP Knowledge Graph (KG)
   url: http://robokopkg.renci.org
+  original_source: robokop
+  derived_from: robokop
 - category: GraphProduct
   derived_from: automat
   description: Robokop KG (Automat)
diff --git a/resource/rtx-kg2/rtx-kg2.md b/resource/rtx-kg2/rtx-kg2.md
@@ -24,6 +24,8 @@ products:
   url: https://github.com/ncats/translator-lfs-artifacts/blob/main/files/
   category: GraphProduct
   format: kgx
+  original_source: rtx-kg2
+  derived_from: rtx-kg2
 category: KnowledgeGraph
 ---
 
diff --git a/resource/ubergraph/ubergraph.md b/resource/ubergraph/ubergraph.md
diff --git a/resource/zfin/zfin.md b/resource/zfin/zfin.md
