diff options
| author | Munyoki Kilyungi | 2023-09-28 12:08:27 +0300 |
|---|---|---|
| committer | Munyoki Kilyungi | 2023-09-28 12:08:48 +0300 |
| commit | 3298dde44681de68c48693cf117ffe1a8e3e1587 (patch) | |
| tree | 639e3a746a688c1c7e53a9e66054e3c4e6d24ef0 /rdf-documentation/genbank-metadata.md | |
| parent | f798f1a066b2c86b0734ef65a392c6117c494deb (diff) | |
| download | gn-docs-3298dde44681de68c48693cf117ffe1a8e3e1587.tar.gz | |
Update auto-generated docs.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
Diffstat (limited to 'rdf-documentation/genbank-metadata.md')
| -rw-r--r-- | rdf-documentation/genbank-metadata.md | 50 |
1 files changed, 50 insertions, 0 deletions
diff --git a/rdf-documentation/genbank-metadata.md b/rdf-documentation/genbank-metadata.md new file mode 100644 index 0000000..7e519fd --- /dev/null +++ b/rdf-documentation/genbank-metadata.md @@ -0,0 +1,50 @@ +# Genebank Metadata +## 'genbank' + +## Generated Triples: + +The following SQL query was executed: + +```sql +SELECT Genbank.Id, Genbank.Sequence, Species.Fullname FROM Genbank LEFT JOIN Species USING (SpeciesId) +``` + +The above query results to triples that have the form: + +```text +genbank:Genbank(Id) -> gnt:hasSequence -> Genbank(Sequence) +genbank:Genbank(Id) -> xkos:classifiedUnder -> gn:Species_fullname +``` +Here's an example query: + +```sparql +PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> +PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> +PREFIX skos: <http://www.w3.org/2004/02/skos/core#> +PREFIX xkos: <http://rdf-vocabulary.ddialliance.org/xkos#> +PREFIX gn: <http://genenetwork.org/id/> +PREFIX gnc: <http://genenetwork.org/category/> +PREFIX gnt: <http://genenetwork.org/term/> +PREFIX dct: <http://purl.org/dc/terms/> +PREFIX foaf: <http://xmlns.com/foaf/0.1/> +PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/> +PREFIX ncbiTaxon: <https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=> +PREFIX generif: <http://www.ncbi.nlm.nih.gov/gene?cmd=Retrieve&dopt=Graphics&list_uids=> +PREFIX xsd: <http://www.w3.org/2001/XMLSchema#> +PREFIX genbank: <https://bioregistry.io/reference/genbank:> +PREFIX owl: <http://www.w3.org/2002/07/owl#> + +SELECT * WHERE { + ?s gnt:hasSequence "GAAAAGGACGAGAGAAAATTATTTTTAAGATAATTAAACATAAAAACCCTGGTGCTTATTACATTATAAAGTACGTTTTTAAAAACCCACAAACTATTATACATACGTTTATGAATCAATTAAATACTCTGCACTTGTTAGGAACACGCATATCCCTTCTTTGTTGAGTTTAACGGAACGGGACAGCGGCGTGCGCCCGCGGCTGGGCTGCTCTGGCCGCGGGTCTCCCCAGGCG" . + ?s xkos:classifiedUnder gn:Mus_musculus . + ?s ?p ?o . +} +``` + +Expected Result: + +```rdf +genbank:AA002843 gnt:hasSequence "GAAAAGGACGAGAGAAAATTATTTTTAAGATAATTAAACATAAAAACCCTGGTGCTTATTACATTATAAAGTACGTTTTTAAAAACCCACAAACTATTATACATACGTTTATGAATCAATTAAATACTCTGCACTTGTTAGGAACACGCATATCCCTTCTTTGTTGAGTTTAACGGAACGGGACAGCGGCGTGCGCCCGCGGCTGGGCTGCTCTGGCCGCGGGTCTCCCCAGGCG" . +genbank:AA002843 xkos:classifiedUnder gn:Mus_musculus . +``` + |