RTXteam / RTX

Software repo for Team Expander Agent (Oregon State U., Institute for Systems Biology, and Penn State U.)
https://arax.ncats.io/
MIT License
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Erroneous labeling, synonyms, etc in a node #517

Closed dkoslicki closed 4 years ago

dkoslicki commented 4 years ago

Something is up with the following node (on KG2): match (n{id:"CUI:C0027651"}) return n

saramsey commented 4 years ago

Excerpt from umls-medlineplus.ttl; this appears to be some kind of CUI typo in the MEDLINEPLUS upstream source for UMLS, maybe?

<https://identifiers.org/umls/MEDLINEPLUS/25> a owl:Class ;
        skos:prefLabel """Cancer"""@en ;
        skos:notation """25"""^^xsd:string ;
        skos:altLabel """Tumor"""@en , """Oncology"""@en , """Malignancy"""@en , """Carcinoma"""@en , """Neoplasms"""@en , """Diagnos\
tic Tests"""@en ;
        rdfs:subClassOf owl:Thing ;
        skos:definition """<p>Cancer begins in your cells, which are the building blocks of your body. Normally, your body forms new \
cells as you need them, replacing old cells that die. Sometimes this process goes wrong. New cells grow even when you don't need them\
, and old cells don't die when they should. These extra cells can form a mass called a tumor. Tumors can be benign or malignant. <a h\
ref='https://medlineplus.gov/benigntumors.html'>Benign tumors</a> aren't cancer while malignant ones are. Cells from malignant tumors\
 can invade nearby tissues. They can also break away and spread to other parts of the body. </p> <p>Cancer is not just one disease bu\
t many diseases. There are more than 100 different types of cancer. Most cancers are named for where they start. For example, lung ca\
ncer starts in the lung, and breast cancer starts in the breast. The spread of cancer from one part of the body to another is called \
metastasis. Symptoms and treatment depend on the cancer type and how advanced it is. Most treatment plans may include surgery, <a hre\
f='https://medlineplus.gov/radiationtherapy.html'>radiation</a> and/or <a href='https://medlineplus.gov/cancerchemotherapy.html'>chem\
otherapy</a>. Some may involve hormone therapy, <a href='https://medlineplus.gov/cancerimmunotherapy.html'>immunotherapy</a> or other\
 types of biologic therapy, or <a href='https://medlineplus.gov/stemcells.html'>stem cell transplantation</a>. </p> <p >NIH: National\
 Cancer Institute</p>"""@en ;
        <https://identifiers.org/umls/MEDLINEPLUS/SIB> <https://identifiers.org/umls/MEDLINEPLUS/10> ;
        <https://identifiers.org/umls/MEDLINEPLUS/SIB> <https://identifiers.org/umls/MEDLINEPLUS/26> ;
        <https://identifiers.org/umls/MEDLINEPLUS/SIB> <https://identifiers.org/umls/MEDLINEPLUS/32> ;
        <https://identifiers.org/umls/MEDLINEPLUS/SIB> <https://identifiers.org/umls/MEDLINEPLUS/34> ;
        <https://identifiers.org/umls/MEDLINEPLUS/SIB> <https://identifiers.org/umls/MEDLINEPLUS/8> ;
        ....
        <https  umls:cui """C0007097"""^^xsd:string ;
        umls:cui """C0086143"""^^xsd:string ;
        umls:cui """C0027651"""^^xsd:string ;
        umls:cui """C0006826"""^^xsd:string ;
        umls:cui """C0278627"""^^xsd:string ;
        umls:STY """T060"""^^xsd:string ;
        umls:STY """T091"""^^xsd:string ;
        umls:STY """T191"""^^xsd:string ;
        umls:hasSTY <https://identifiers.org/umls/STY/T060> ;
        umls:hasSTY <https://identifiers.org/umls/STY/T091> ;
        umls:hasSTY <https://identifiers.org/umls/STY/T191> ;