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[bioontology-support] RXNORM Properties

David Saylor david.saylor at beyondlucid.com
Fri Jun 26 11:45:49 PDT 2020


Great, thank you as well!

David Saylor, Chief Engineer
*Beyond Lucid Technologies, Inc. *
(650) 648-ePCR office
(818) 660-5726 direct


On Fri, Jun 26, 2020 at 2:23 PM Michael Dorf <mdorf at stanford.edu> wrote:

> Hi David,
>
> We’re replaced some of the original parameter names with more descriptive
> counterparts, but the documentation still shows the original names in some
> places. The old names have been preserved for backwards compatibility. In
> this case “display” is equivalent to “include”, which still works and is
> documented:
>
>
> https://data.bioontology.org/search?q=Acetaminophen&ontologies=RXNORM&page=1&pagesize=2&roots_only=true&include=prefLabel,synonym,definition,notation,cui,semanticType,properties
>
> It does look like “properties” isn’t on that list, however. I’ll make sure
> to have this updated in our next release. Thank you for bringing this to
> our attention!
>
> Michael
>
>
>
> On Jun 26, 2020, at 10:38 AM, David Saylor <david.saylor at beyondlucid.com>
> wrote:
>
> Yes, I think that's just what we need!  I don't see the display parameter
> in the documentation.  Is that intentional?
>
> We'll continue on our side.
>
> Thank you!
>
> Best regards,
> David
>
> David Saylor, Chief Engineer
> *Beyond Lucid Technologies, Inc. *
> (650) 648-ePCR office
> (818) 660-5726 direct
>
>
> On Wed, Jun 24, 2020 at 6:52 PM Michael Dorf <mdorf at stanford.edu> wrote:
>
>> Hi David,
>>
>> Thanks for contacting us. All of the attributes of a calls are stored in
>> the “properties” collection. You should be able to get those by using the
>> “display” query parameter:
>>
>>
>> https://data.bioontology.org/search?q=Acetaminophen&ontologies=RXNORM&page=1&pagesize=2&roots_only=true&display=prefLabel,synonym,definition,notation,cui,semanticType,properties
>>
>> Let me know if this works.
>>
>> Thanks!
>>
>> Michael
>>
>> On Jun 24, 2020, at 8:52 AM, David Saylor <david.saylor at beyondlucid.com>
>> wrote:
>>
>> Hello, we are trying to use the BioPortal API to look up RXNORM codes.
>> We are able to do the search via a query like below.  What we really want
>> to know is the more detailed properties of a particular
>>
>> Here is the page for Acetaminophen (link
>> <https://bioportal.bioontology.org/ontologies/RXNORM/?p=classes&conceptid=http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F161&jump_to_nav=true#details>).
>> We would really like to get the additional RXNORM properties from a page
>> like, such as Has ingredient or Has ingredients.
>>
>> Could you let me know the best way to pull out those properties?
>>
>> Thanks and best regards,
>> David
>>
>> *Query*
>>
>> https://data.bioontology.org/search?q=Acetaminophen&ontologies=RXNORM&page=1&pagesize=2&roots_only=True
>>
>>
>>
>> *First Result*
>> {
>>   "page": 1,
>>   "pageCount": 883,
>>   "totalCount": 1766,
>>   "prevPage": null,
>>   "nextPage": 2,
>>   "links": {
>>     "nextPage": "
>> http://data.bioontology.org/search?q=Acetaminophen&ontologies=RXNORM&page=2&pagesize=2&roots_only=True
>> ",
>>     "prevPage": null
>>   },
>>   "collection": [
>>     {
>>       "prefLabel": "Acetaminophen",
>>       "cui": [
>>         "C0000970"
>>       ],
>>       "semanticType": [
>>         "T109",
>>         "T121"
>>       ],
>>       "obsolete": false,
>>       "matchType": "prefLabel",
>>       "ontologyType": "ONTOLOGY",
>>       "provisional": false,
>>       "@id": "http://purl.bioontology.org/ontology/RXNORM/161",
>>       "@type": "http://www.w3.org/2002/07/owl#Class",
>>       "links": {
>>         "self": "
>> http://data.bioontology.org/ontologies/RXNORM/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F161
>> ",
>>         "ontology": "http://data.bioontology.org/ontologies/RXNORM",
>>         "children": "
>> http://data.bioontology.org/ontologies/RXNORM/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F161/children
>> ",
>>         "parents": "
>> http://data.bioontology.org/ontologies/RXNORM/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F161/parents
>> ",
>>         "descendants": "
>> http://data.bioontology.org/ontologies/RXNORM/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F161/descendants
>> ",
>>         "ancestors": "
>> http://data.bioontology.org/ontologies/RXNORM/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F161/ancestors
>> ",
>>         "instances": "
>> http://data.bioontology.org/ontologies/RXNORM/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F161/instances
>> ",
>>         "tree": "
>> http://data.bioontology.org/ontologies/RXNORM/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F161/tree
>> ",
>>         "notes": "
>> http://data.bioontology.org/ontologies/RXNORM/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F161/notes
>> ",
>>         "mappings": "
>> http://data.bioontology.org/ontologies/RXNORM/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F161/mappings
>> ",
>>         "ui": "
>> http://bioportal.bioontology.org/ontologies/RXNORM?p=classes&conceptid=http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F161
>> ",
>>         "@context": {
>>           "self": "http://www.w3.org/2002/07/owl#Class",
>>           "ontology": "http://data.bioontology.org/metadata/Ontology",
>>           "children": "http://www.w3.org/2002/07/owl#Class",
>>           "parents": "http://www.w3.org/2002/07/owl#Class",
>>           "descendants": "http://www.w3.org/2002/07/owl#Class",
>>           "ancestors": "http://www.w3.org/2002/07/owl#Class",
>>           "instances": "http://data.bioontology.org/metadata/Instance",
>>           "tree": "http://www.w3.org/2002/07/owl#Class",
>>           "notes": "http://data.bioontology.org/metadata/Note",
>>           "mappings": "http://data.bioontology.org/metadata/Mapping",
>>           "ui": "http://www.w3.org/2002/07/owl#Class"
>>         }
>>       },
>>       "@context": {
>>         "@vocab": "http://data.bioontology.org/metadata/",
>>         "prefLabel": "http://data.bioontology.org/metadata/skosprefLabel
>> ",
>>         "obsolete": "http://data.bioontology.org/metadata/owlobsolete",
>>         "semanticType": "
>> http://data.bioontology.org/metadata/umlssemanticType",
>>         "cui": "http://data.bioontology.org/metadata/umlscui"
>>       }
>>     }
>>   ]
>> }
>>
>>
>> David Saylor, Chief Engineer
>> *Beyond Lucid Technologies, Inc. *
>> (650) 648-ePCR office
>> (818) 660-5726 direct
>> _______________________________________________
>> bioontology-support mailing list
>> bioontology-support at lists.stanford.edu
>> https://mailman.stanford.edu/mailman/listinfo/bioontology-support
>>
>>
>>
>
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