Galgonek created this task. Galgonek added a project: Wikidata-Query-Service. Restricted Application added a subscriber: Aklapper. Restricted Application added a project: Wikidata.
TASK DESCRIPTION I would like to ask you to add our SPARQL endpoint (https://idsm.elixir-czech.cz/sparql/endpoint/wikidata) to the list of federated endpoints <https://gerrit.wikimedia.org/r/plugins/gitiles/wikidata/query/deploy/+/master/whitelist.txt>. In 2019, we published a set of specialised SPARQL endpoints that allows performing substructure and similarity search on several small-molecules datasets (https://doi.org/10.1186/s13321-019-0367-2). As Wikidata also contains compound structures (https://www.wikidata.org/wiki/Property:P233), we decided to employ these data and to create the new dedicated SPARQL endpoint that support substructure and similarity search in Wikidata chemical compounds. Because we employ only the compound structures and no other data are included in our endpoint, it will be very useful to be able to call our endpoint from the Wikidata endpoint. For example, the following query could use our endpoint to obtain all Wikidata compounds containing Aspirin as their substructures. The rest of the query then can retrieve other additional useful information from Wikidata (InChI identifiers of found compounds in this case): PREFIX idsm: <https://idsm.elixir-czech.cz/sparql/endpoint/> PREFIX sachem: <http://bioinfo.uochb.cas.cz/rdf/v1.0/sachem#> PREFIX wdt: <http://www.wikidata.org/prop/> SELECT * WHERE { SERVICE idsm:wikidata { # search compounds containing Aspirin as their substructures ?compound sachem:substructureSearch [ sachem:query "O=C(C)Oc1ccccc1C(=O)O" ] } hint:Prior hint:runFirst true. # hint to evaluate the IDSM service first # retrieve additional data about the found compounds from Wikidata ?compound wdt:P234 ?inchi. } As our new endpoint contains only data obtained from Wikidata, its license is CC0 as well. More details are available in the paper (https://doi.org/10.1186/s13321-019-0367-2) or in the manual page: https://idsm.elixir-czech.cz/sparql/manual.html. TASK DETAIL https://phabricator.wikimedia.org/T275196 EMAIL PREFERENCES https://phabricator.wikimedia.org/settings/panel/emailpreferences/ To: Galgonek Cc: Aklapper, Galgonek, MPhamWMF, CBogen, Akuckartz, Nandana, Namenlos314, Lahi, Gq86, Lucas_Werkmeister_WMDE, GoranSMilovanovic, QZanden, EBjune, merbst, LawExplorer, _jensen, rosalieper, Scott_WUaS, Jonas, Xmlizer, jkroll, Wikidata-bugs, Jdouglas, aude, Tobias1984, Manybubbles, Mbch331
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