diff options
Diffstat (limited to 'gn')
| -rw-r--r-- | gn/db/sources/wikidata.scm | 29 | ||||
| -rw-r--r-- | gn/db/sparql.scm | 3 |
2 files changed, 31 insertions, 1 deletions
diff --git a/gn/db/sources/wikidata.scm b/gn/db/sources/wikidata.scm new file mode 100644 index 0000000..7397426 --- /dev/null +++ b/gn/db/sources/wikidata.scm @@ -0,0 +1,29 @@ +#! + +Wikidata queries + +!# + +(define-module (gn db sources wikidata) +) + +(define ps-encoded-by "ps:P702") +(define wdt-instance-of "wdt:P31") +(define wdt-in-taxon "wdt:P703") +(define wd-human "wd:Q15978631") +(define wd-mouse "wd:Q83310") +(define wd-rat "wd:Q184224") +(define wd-gene "wd:Q7187") + +(define (wikidata_query_geneids gene_name) + "Return the wikidata identifiers pointing to genes of listed species" + (string-append + "SELECT DISTINCT ?wikidata_id + WHERE { + ?wikidata_id " wdt-instance-of " " wd-gene "; + " wdt-in-taxon " ?species . + VALUES (?species) { (" wd-human " ) ( " wd-mouse" ) ( " wd-rat" ) } . + ?wikidata_id rdfs:label \"" gene_name "\"@en . + } +" + )) diff --git a/gn/db/sparql.scm b/gn/db/sparql.scm index b7d94f3..f03389b 100644 --- a/gn/db/sparql.scm +++ b/gn/db/sparql.scm @@ -2,7 +2,7 @@ Module for handling SPARQL primitives. -Note that GN queries should go into gn/data - this is currently not +Note that GN queries should go into gn/db/sources - this is currently not the case. !# @@ -18,6 +18,7 @@ the case. #:use-module (web request) #:use-module (web uri) #:use-module (gn cache memoize) + #:use-module (gn db sources wikidata) #:use-module (web gn-uri) #:export (memo-sparql-species |