New subject: Wikidata to search chemical compound names

25 Apr 2016

A way to achieve this could be to fetch all labels and aliases for all
chemical compounds in one query and store them locally in your web
application. This certainly is only feasible if the number of compounds
does not get to big in Wikdiata. Currently, the query takes ~ 6 sec.

PREFIX wd: <http://www.wikidata.org/entity/>
PREFIX wdt: <http://www.wikidata.org/prop/direct/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>

SELECT DISTINCT ?cmpnd ?label WHERE {
    {?cmpnd wdt:P279 wd:Q11173 .} UNION
      {?cmpnd wdt:P31 wd:Q11173 .}
    ?cmpnd rdfs:label ?label .
}

Best,
Sebastian
(sebotic)

...
  Hi all! I'm building a web application where users
can search for
 protein/compound/etc. names and view their 3D structure using WebGL. I'm
 currently using the PubChem (chemical compounds database) API to provide
 some autocomplete data, but I found that Wikidata also has many chemical
 compound names with PubChem indices! The most important reason to try to
 autocomplete compound names via Wikidata is to allow users to search in
 different languages. PubChem generally only provides English names.
 However, I could not find a suitable API for this. I tried building a
 SPARQL query but that quickly became very slow. I could not find an option
 to limit full-text searches to a specific subclass in the search API
 provided by:https://www.wikidata.org/w/api.php?action=help&modules=wbsearchentit…ties.
 Do you have any ideas? The only option I see for now is iterating each
 response entity and looking up their subclass of/instance of property.

Re: [Wikidata] Wikidata to search chemical compound names