coordinating OBO terms for OHD

[lschriml]

Hello Bill,
following our editorial working group call,
looking at OHD, to see where I can contribute.

I've included below a few OBO Foundry ontology terms, that may be of use for this project. As we discussed on the call today, DO would welcome collaboration on this branch of the DO with your project. We don't currently have carious lesion in the DO. Have you considered carious lesion as a phenotype ?

To get us started, can you share the authoritative resources you are using ?,
so that we can align our definitions and include citations to your sources.

Looking around for sources, which of these do you recommend:

(Caton et al. 2018)
A new classification scheme for periodontal and peri‐implant diseases and conditions – Introduction and key changes from the 1999 classification
https://onlinelibrary.wiley.com/doi/full/10.1111/jcpe.12935
https://www.ncbi.nlm.nih.gov/pubmed/29926489

Professional Dental Terminology for the Dental Assistant and Hygienist
https://www.dentalcare.com/en-us/professional-education/ce-courses/ce542/a-c
-- glossary of terms

ADA: Glossary of Dental Clinical and Administrative Terms
https://www.ada.org/en/publications/cdt/glossary-of-dental-clinical-and-administrative-ter#c

OBO Ontology terms:
from the Symptom Ontology:
symptom: SYMP:0000462
pain: SYMP:0000099
A sensation perception where there is an unpleasant sensation that usually indicates the body is threatened or damaged. The sensation may be sharp or dull, short-lived or chronic, intermittent or continual, confined to one area or spread over the entire body.
http://www.nationalpainfoundation.org/MyTreatment/articles/Cancer_PainDefinitions.asp

DO: Disease Ontology
disease [DOID:4]
tooth disease [DOID:1091]
dental caries [DOID:216]

Cheers,
Lynn

[wdduncan]

Hi Lynn.
Sorry my response was so slow. As you know, I've had a lot happen in my life the last two years.
I cannot comment on the quality of the references you mention. I typically work with a dentist for adding particular disease grade terms.

Other comments:

• We use OGMS's pain term. The reason for this is that we are/were following the OGMS model of disease, and pain was already in the OGMS. In the future, we may switch to the emotion ontology's feeling of pain term. It depends on what we end up doing with the concept of pain in the future.

• OHD's dental caries term was originally added by Alan (I think). It may have originally used the DOID:216 IRI. For some reason (which is hard to discern) it seems that I changed the IRI in 2015. The definitions in the OHD and DO are also different. This may be the reason why the IRI was changed.

• Perhaps in the future, we may make use of the DO tooth disease hierarchy. It depends what exactly is meant by 'disease'. In the dental context, I am finding that most of what is called a 'disease' by a dentist would be classified as either a disorder (e.g, carious lesion of tooth or a disease course in the OGMS framework.

[lschriml]

Hello Bill, Good to hear from you. Would be happy to coordinate the dental diseases with you. BTW: DO includes both diseases and disorders. Cheers, Lynn

…

Sent from my iPhone

On Dec 7, 2022, at 9:28 AM, Bill Duncan ***@***.***> wrote:  Hi Lynn. Sorry my response was so slow. As you know, I've had a lot happen in my life the last two years. I cannot comment on the quality of the references you mention. I typically work with a dentist for adding particular disease grade terms. Other comments: We use OGMS's pain term. The reason for this is that we are/were following the OGMS model of disease, and pain was already in the OGMS. In the future, we may switch to the emotion ontology's feeling of pain term. It depends on what we end up doing with the concept of pain in the future. OHD's dental caries term was originally added by Alan (I think). It may have originally used the DOID:216 IRI. For some reason (which is hard to discern) it seems that I changed the IRI in 2015. The definitions in the OHD and DO are also different. This may be the reason why the IRI was changed. Perhaps in the future, we may make use of the DO tooth disease hierarchy. It depends what exactly is meant by 'disease'. In the dental context, I am finding that most of what is called a 'disease' by a dentist would be classified as either a disorder (e.g, carious lesion of tooth or a disease course in the OGMS framework. — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you authored the thread.