What Predicate About Disease Is Suitable For Bioresource?
2
0
Entering edit mode
7.2 years ago
maorinphone ▴ 20

Hello. This is my first question!

Now I'm trying to make rdf about animal resource in NIBIO.
http://animal.nibio.go.jp/e_available_mice.html

I referred RIKEN bio resource data and most of our data could convert.

http://biolod.org/class/cria315s1i/Mouse_Strain

In addition to this, I'd like to connect disease information. I checked Bio Portal,UniProt, drugbank and DBpedia to get information. But I couldn't find exact predicate for disease. What I want to add is for example, "ICGN mice" have "Nephrosis" as disease. If you know exact predicate, please let me know.

Sometimes I confused what kind of predicate is suitable for our data. If you know how to find predicate for disease related data, please let me know too.

• 2.2k views
ADD COMMENT
0
Entering edit mode

Your Hyper-Links are not properly formatted.

ADD REPLY
0
Entering edit mode

Thank you for your comment. I edited. Is it OK?

ADD REPLY
1
Entering edit mode
7.2 years ago

did you try the disease ontology ? http://disease-ontology.org/ / http://purl.obolibrary.org/obo/doid.owl

Nephrosis : http://purl.obolibrary.org/obo/DOID_2527

<owl:Class rdf:about="&lt;a href=" http:="" purl.obolibrary.org="" obo="" DOID_2527"="" rel="nofollow">http://purl.obolibrary.org/obo/DOID_2527">
    <rdfs:label rdf:datatype="&lt;a href=" http:="" www.w3.org="" 2001="" XMLSchema#string"="" rel="nofollow">http://www.w3.org/2001/XMLSchema#string">nephrosis</rdfs:label>
    <rdfs:subClassOf rdf:resource="&lt;a href=" http:="" purl.obolibrary.org="" obo="" DOID_557"="" rel="nofollow">http://purl.obolibrary.org/obo/DOID_557"/>
    <oboInOwl:id rdf:datatype="&lt;a href=" http:="" www.w3.org="" 2001="" XMLSchema#string"="" rel="nofollow">http://www.w3.org/2001/XMLSchema#string">DOID:2527</oboInOwl:id>
    <oboInOwl:hasDbXref rdf:datatype="&lt;a href=" http:="" www.w3.org="" 2001="" XMLSchema#string"="" rel="nofollow">http://www.w3.org/2001/XMLSchema#string">MSH:D009401</oboInOwl:hasDbXref>
    <oboInOwl:hasDbXref rdf:datatype="&lt;a href=" http:="" www.w3.org="" 2001="" XMLSchema#string"="" rel="nofollow">http://www.w3.org/2001/XMLSchema#string">SNOMEDCT_2010_1_31:90708001</oboInOwl:hasDbXref>
    <oboInOwl:hasDbXref rdf:datatype="&lt;a href=" http:="" www.w3.org="" 2001="" XMLSchema#string"="" rel="nofollow">http://www.w3.org/2001/XMLSchema#string">UMLS_CUI:C0027720</oboInOwl:hasDbXref>
    <oboInOwl:hasOBONamespace rdf:datatype="&lt;a href=" http:="" www.w3.org="" 2001="" XMLSchema#string"="" rel="nofollow">http://www.w3.org/2001/XMLSchema#string">disease_ontology</oboInOwl:hasOBONamespace>
    <oboInOwl:hasExactSynonym rdf:datatype="&lt;a href=" http:="" www.w3.org="" 2001="" XMLSchema#string"="" rel="nofollow">http://www.w3.org/2001/XMLSchema#string">nephrosis</oboInOwl:hasExactSynonym>
    <oboInOwl:hasExactSynonym rdf:datatype="&lt;a href=" http:="" www.w3.org="" 2001="" XMLSchema#string"="" rel="nofollow">http://www.w3.org/2001/XMLSchema#string">nephrosis NOS</oboInOwl:hasExactSynonym>
    <oboInOwl:hasExactSynonym rdf:datatype="&lt;a href=" http:="" www.w3.org="" 2001="" XMLSchema#string"="" rel="nofollow">http://www.w3.org/2001/XMLSchema#string">nephrosis, NOS</oboInOwl:hasExactSynonym>
</owl:Class>
ADD COMMENT
0
Entering edit mode

Thank you for your answer.
I knew disease ontology, but I was not sure how to apply for our data.
So, if I use this ontology into our data with ttl, how to add these disease ontology information? I added has_symptom into our data. Does it correct?
And I couldn't find exact meaning's predicate that one mouse strain has a relation to some diseases... If you find any useful things, please let me know.

@prefix rdfs:    <http://www.w3.org/2000/01/rdf-schema#> .
@prefix rdf:     <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix BioLOD_class_cria315s1i:  <http://purl.jp/bio/13/class/cria315s1i/> .
@prefix OBO: <http://purl.obolibrary.org/obo/doid#> .

<http://sample.go.jp/resource/animalbank/sample001>
rdf:type        BioLOD_class_cria315s1i:Mouse_Strain;
rdfs:label  "ICGN";
OBO:has_symptom "cold";
.....
ADD REPLY

Login before adding your answer.

Traffic: 2436 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6