Making Assertions
in Nanopublications
Definitions
Nanopublication
An object by which a person (or persons or institution)
can obtain credit for an assertion (a ...
Weakest semantics, but trivial to do
(machine “readable”, not machine interpretable)
Minted
URI
User generated “mHTT cause...
Weak semantics, but easy to do
(machine “readable”, not machine interpretable)
Minted
Concept URI
Minted
Concept URI
Minte...
Generated semantics,
coverage/quality <100%
(machine “readable”, not machine interpretable)
Minted
Concept URI
Minted
Conc...
Strong semantics, but difficult
ConceptWiki
Concept URI
ConceptWiki
Concept URI
ConceptWiki
Concept URI
Protein ontology:
...
Weaker semantics, but doable and extendible
(machine readable, semi machine interpretable)
ConceptWiki
Concept URI
Concept...
Future work: auto-extend
(machine readable, machine interpretable)
ConceptWiki
Concept URI
ConceptWiki
Concept URI
Concept...
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Nanopubs strong to_weak_semantics_vs_machine_readability

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Nanopubs strong to_weak_semantics_vs_machine_readability

  1. 1. Making Assertions in Nanopublications
  2. 2. Definitions Nanopublication An object by which a person (or persons or institution) can obtain credit for an assertion (a minimal unit of thought). A nanopublication contains an assertion, provenance (how the assertion came to be, procedures and producers), and publication information (who or what produced the nanopublication). Weak-strong semantics How understandable an assertion is for computers. Minted URI A URI (http://...) that is generated by a software client,
  3. 3. Weakest semantics, but trivial to do (machine “readable”, not machine interpretable) Minted URI User generated “mHTT causes Huntington's Disease” Auto generated
  4. 4. Weak semantics, but easy to do (machine “readable”, not machine interpretable) Minted Concept URI Minted Concept URI Minted Concept URI User generated “mHTT” “causes” “Huntington's Disease” Auto generated cw:concept_property_relation
  5. 5. Generated semantics, coverage/quality <100% (machine “readable”, not machine interpretable) Minted Concept URI Minted Concept URI Minted Concept URI User generated “mHTT” “causes” “Huntington's Disease” Auto generated cw:concept_property_relation “mHTT causes Huntington's Disease” Concept Recognizer Service (Peregrine, NCBO)
  6. 6. Strong semantics, but difficult ConceptWiki Concept URI ConceptWiki Concept URI ConceptWiki Concept URI Protein ontology: <mHTT> Relation Ontology: <causes> Disease Ontology: <HD> Human Protein Property Human Disease cw:conceptcw:conceptcw:concept User generated “mHTT” “causes” “Huntington's Disease” Owl:Thing Owl: Property Owl:Thing po:Protein ro:<...> do:Human Disease Rdf:seeAlso Rdf:seeAlso Rdf:seeAlso Cw: ConceptWiki ontology, po: a protein ontology, ro: a relation ontology, do: a disease ontology Owl: Web Ontology Language, RDF: Resource Description Framework
  7. 7. Weaker semantics, but doable and extendible (machine readable, semi machine interpretable) ConceptWiki Concept URI ConceptWiki Concept URI ConceptWiki Concept URI Minted URI Minted URI Minted URI Owl:Thing Owl: Property Owl:Thing cw:conceptcw:conceptcw:concept User-generated “mHTT” “causes” “Huntington's Disease” Automatically generated Cw: ConceptWiki ontology, po: a protein ontology, ro: a relation ontology, do: a disease ontology Owl: Web Ontology Language, RDF: Resource Description Framework Rdf:seeAlso Rdf:seeAlso Rdf:seeAlso
  8. 8. Future work: auto-extend (machine readable, machine interpretable) ConceptWiki Concept URI ConceptWiki Concept URI ConceptWiki Concept URI User-generated “mHTT” “causes” “Huntington's Disease” Automatically generated Cw: ConceptWiki ontology, po: a protein ontology, ro: a relation ontology, do: a disease ontology Owl: Web Ontology Language, RDF: Resource Description Framework Protein ontology: <mHTT> Relation Ontology: <causes> Disease Ontology: <HD> Human Protein Property Human Disease cw:conceptcw:conceptcw:concept Owl:Thing Owl: Property Owl:Thing po:Protein ro:<...> do:Human Disease Rdf:seeAlso Rdf:seeAlso Rdf:seeAlso

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