Bundles
(Redirected from Graph contents)
The Neurocommons RDF distribution is organized into modules or "bundles". Following is list of what's provided. Each has its own page of documentation.
In most cases bundle B corresponds to named graph http://purl.org/science/graph/B.
| Bundle | Description | Documentation |
|---|---|---|
| Derived from MeSH: | ||
| mesh/mesh-skos | MeSH polyhierarchy represented using SKOS courtesy van Assem et al. | /mesh/mesh-skos |
| mesh/qualified-headings | MeSH qualified headings - defines one URI for each valid major/minor heading combination | /mesh/qualified-headings |
| Derived from Medline: | ||
| medline/subject-headings | Medline: NLM MeSH subject headings for all articles | /medline/subject-headings |
| medline/titles-years | Medline: title and year of publication for each article | /medline/titles-years |
| Derived from NCBI: | ||
| ncbi/goa | NCBI Gene Ontology annotations | /ncbi/goa |
| ncbi/homologene | NCBI Homologene selection | /ncbi/homologene |
| ncbi/gene-info | NCBI Gene gene synonyms extraction | /ncbi/gene-info |
| ncbi/gene-pubmed | Links from NCBI Gene to Medline | /ncbi/gene-pubmed |
| Ontologies: | ||
| bams | BAMS (Brain Architecture Management System) | /bams |
| galen | Galen ontology | /galen |
| obo/all | All OBO ontologies | /obo/all |
| mesh-eswc06 | Supporting ontology for conversion of MeSH polyhierarchy to RDF | /mesh-eswc06 |
| nci-thesaurus | NCI thesaurus | /nci-thesaurus |
| sciencecommons | Ad hoc Science Commons ontology | /sciencecommons |
| senselab | Senselab | /senselab |
| skos | W3C SKOS (Simple Knowledge Organization System) ontology | /skos |
| pdspki | PDSP Ki | /pdspki |
| Other: | ||
| addgene | Addgene plasmid catalog | /addgene |
| neurocommons-text | Neurocommons text processing pilot | /neurocommons-text |
| aba | ABA (Allen Brain Atlas) | /aba |
| reactome | Reactome records (direct from RDB) | /reactome |
| inferred-relations | Transitive closure of subclass and part_of | /inferred-relations |
| New in version 2 (forthcoming): | ||
| amino-acid | Amino acid ontology | /amino-acid |
| bfo | Basic Formal Ontology | /bfo |
| hla | IMGT/HLA | /hla |
| hpo | Human Phenotype Ontology | /hpo |
| iao | Information Artifact Ontology | /iao |
| mahco | Stemnet MaHCO | /mahco |
| medline/abstracts | Medline abstracts | /medline/abstracts |
| medline/alleles | Mentions of HLA alleles in Medline abstracts | /medline/alleles |
| medline/backbone | Medline 'backbone' | /medline/backbone |
| ncbi/gene-backbone | Entrez Gene 'backbone' | /ncbi/gene-backbone |
| ncbi/gene-names | Entrez Gene gene names | /ncbi/gene-names |
| nif | Neuroscience Information Framework (NIF) ontology | /nif |
| omim | OMIM links to Pubmed and to HLA allele mentions | /omim |
The best way to get bundles is via the RDF installer (RDFherd), but they are also available via HTTP at [1].
