Reactome pathways
E739006
Reactome pathways are curated, peer-reviewed biological pathways that map molecular interactions and processes in human biology and other species.
All labels observed (4)
| Label | Occurrences |
|---|---|
| Reactome | 2 |
| Pathway Browser | 1 |
| Reactome Knowledgebase | 1 |
| Reactome pathways canonical | 1 |
How this entity was disambiguated
This entity first appeared as the object of triple T8482783 — resolving that mention is where its identity was fixed. The disambiguator weighed these candidate entities and picked the highlighted one (or “None”, minting a new entity). This is how homonymy is resolved: the same surface form can point to different entities.
NED1
Entity disambiguation (via context triple)
gpt-5-mini-2025-08-07
Target entity: Reactome pathways Context triple: [UniProt protein sequences, linkedTo, Reactome pathways]
-
A.
KEGG pathways
KEGG pathways are curated biological pathway maps in the KEGG database that represent networks of molecular interactions, reactions, and relations involved in cellular and organismal processes.
-
B.
Gene Ontology (GO)
Gene Ontology (GO) is a major bioinformatics initiative that provides a structured, controlled vocabulary to describe gene and gene product attributes across species in terms of their molecular functions, biological processes, and cellular components.
-
C.
LifeWiki
LifeWiki is a comprehensive online encyclopedia dedicated to documenting patterns, terminology, and research related to Conway's Game of Life and other cellular automata.
-
D.
Molecular Systems Biology
Molecular Systems Biology is a peer-reviewed scientific journal focusing on systems-level analysis of molecular and cellular processes in biology.
-
E.
Protein Information Resource
Protein Information Resource is a bioinformatics resource center that curates, annotates, and provides access to comprehensive protein sequence and functional information for the scientific community.
- F. None of above. chosen
- G. Unsure - the case is ambiguous/there is not enough information to decide.
NED2
Entity disambiguation (via description)
gpt-5-mini-2025-08-07
Target entity: Reactome pathways Target entity description: Reactome pathways are curated, peer-reviewed biological pathways that map molecular interactions and processes in human biology and other species.
-
A.
KEGG pathways
KEGG pathways are curated biological pathway maps in the KEGG database that represent networks of molecular interactions, reactions, and relations involved in cellular and organismal processes.
-
B.
Gene Ontology (GO)
Gene Ontology (GO) is a major bioinformatics initiative that provides a structured, controlled vocabulary to describe gene and gene product attributes across species in terms of their molecular functions, biological processes, and cellular components.
-
C.
LifeWiki
LifeWiki is a comprehensive online encyclopedia dedicated to documenting patterns, terminology, and research related to Conway's Game of Life and other cellular automata.
-
D.
Molecular Systems Biology
Molecular Systems Biology is a peer-reviewed scientific journal focusing on systems-level analysis of molecular and cellular processes in biology.
-
E.
Protein Information Resource
Protein Information Resource is a bioinformatics resource center that curates, annotates, and provides access to comprehensive protein sequence and functional information for the scientific community.
- F. None of above. chosen
Statements (49)
| Predicate | Object |
|---|---|
| instanceOf |
biological pathway collection
ⓘ
curated knowledgebase ⓘ |
| accessibleVia |
BioPAX export
ⓘ
REST API ⓘ Reactome web interface ⓘ SBML export ⓘ |
| covers |
cell cycle
ⓘ
developmental biology ⓘ disease pathways ⓘ gene expression ⓘ immune system processes ⓘ metabolism ⓘ signal transduction ⓘ |
| crossReferencedWith |
KEGG pathways
ⓘ
NCBI BioSystems ⓘ WikiPathways ⓘ |
| curatedBy | expert biologists ⓘ |
| describedAs | curated, peer-reviewed biological pathways ⓘ |
| focusesOn | human biology ⓘ |
| includesPathwaysFor | other species ⓘ |
| linkedTo |
ChEBI
ⓘ
Ensembl ⓘ Gene Ontology ⓘ
linked to:
Gene Ontology (GO)
NCBI Gene ⓘ
linked to:
NCBI Gene database
UniProt ⓘ
linked to:
UniProt Knowledgebase
|
| maps |
biological processes
ⓘ
molecular interactions ⓘ |
| organizedBy | hierarchical event structure ⓘ |
| organizedInto |
pathway modules
ⓘ
pathways ⓘ reactions ⓘ |
| partOf |
Reactome Knowledgebase
ⓘ
linked to:
Reactome pathways
|
| peerReviewedBy | independent experts ⓘ |
| supports |
comparative pathway analysis
ⓘ
data interpretation for omics experiments ⓘ functional annotation of genomes ⓘ over-representation analysis ⓘ pathway enrichment analysis ⓘ pathway topology analysis ⓘ |
| supportsAnalysisOf |
gene expression datasets
ⓘ
genomic variant datasets ⓘ proteomics datasets ⓘ |
| supportsInferredEventsFor |
fruit fly
ⓘ
model organisms ⓘ mouse ⓘ rat ⓘ zebrafish ⓘ |
| uses | evidence from experimental literature ⓘ |
| visualizedWith |
Pathway Browser
ⓘ
linked to:
Reactome pathways
|
How these facts were elicited
The pipeline generated the facts above by prompting gpt-5.1 with this entity's name + description and the instruction below.
Instruction
You are a knowledge base construction expert. Given a subject entity and a description of it, return factual statements that you know for the subject as a JSON list of dictionaries(triples), where keys must be "subject", "predicate" and "object". The number of facts may be very high, between 25 to 50 or more, for very popular subjects. For less popular subjects, the number of facts can be very low, like 5 or 10. # Requirements - If you don't know the subject at all, return an empty list. - If the subject is not a named entity, return an empty list. - Include at least one triple where predicate is "instanceOf". - Do not get too wordy. - Separate several objects into multiple triples with one object.
Input
Subject: Reactome pathways Description of subject: Reactome pathways are curated, peer-reviewed biological pathways that map molecular interactions and processes in human biology and other species.
Referenced by (5)
Full triples — surface form annotated when it differs from this entity's canonical label.
linked to: Reactome pathways
linked to: Reactome pathways
linked to: Reactome pathways
linked to: Reactome pathways