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[bioontology-support] Annotator Plus
Kuttichi Keloth, Vipina
vk396 at njit.edu
Tue Dec 3 09:54:14 PST 2019
Hi,
Is there documentation available for annotator plus specifically for
understanding Negation?
I tried annotating the text "*Neck supple, no lymphadenopathy, no JVD, no
edema*." specifying the options Match longest only, Detect Negation and
using SNOMED CT as the ontology.
I am getting expected results as shown in the attached screenshot.
But when I click on the link for reproducing these results using the
corresponding *REST API call*
this is what I get
*****************************************************************************************
[{
"annotatedClass": {
"@id": "http://purl.bioontology.org/ontology/SNOMEDCT/48162006",
"@type": "http://www.w3.org/2002/07/owl#Class"
},
"hierarchy": [
],
"annotations": [
{
"from": 8,
"to": 13,
"matchType": "PREF",
"text": "SUPPLE",
"negationContext": "AFFIRMED"
}
],
"mappings": [
]
},{
"annotatedClass": {
"@id": "http://purl.bioontology.org/ontology/SNOMEDCT/30746006",
"@type": "http://www.w3.org/2002/07/owl#Class"
},
"hierarchy": [
],
"annotations": [
{
"from": 23,
"to": 37,
"matchType": "PREF",
"text": "LYMPHADENOPATHY",
"negationContext": "AFFIRMED"
}
],
"mappings": [
]
},{
"annotatedClass": {
"@id": "http://purl.bioontology.org/ontology/SNOMEDCT/79654002",
"@type": "http://www.w3.org/2002/07/owl#Class"
},
"hierarchy": [
],
"annotations": [
{
"from": 59,
"to": 63,
"matchType": "PREF",
"text": "EDEMA",
"negationContext": "AFFIRMED"
}
],
"mappings": [
]
},{
"annotatedClass": {
"@id": "http://purl.bioontology.org/ontology/SNOMEDCT/267038008",
"@type": "http://www.w3.org/2002/07/owl#Class"
},
"hierarchy": [
],
"annotations": [
{
"from": 59,
"to": 63,
"matchType": "PREF",
"text": "EDEMA",
"negationContext": "AFFIRMED"
}
],
"mappings": [
]
}]
**************************************************************************************
As you can see for every concept the negationContext is shown as "AFFIRMED".
I tried with different texts but I am not getting "NEGATED" in any case.
Could you please look into this and let me know what is happening in the
case of API calls?
Thank you.
Vipina
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