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Several issues #7641

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galyea123 opened this issue Apr 26, 2024 · 6 comments
Open

Several issues #7641

galyea123 opened this issue Apr 26, 2024 · 6 comments
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merge New term request on list Added to the obosletion or merge candidate list. user request A request from an external user

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@galyea123
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Hi Sabrina! Following your suggestions I included several issues in the same document for this week:

Duplicated term
“Weiss-kruszka syndrome” MONDO:0032836 is duplicated with “metopic ridging-ptosis-facial dysmorphism syndrome” MONDO:0044715
Please merge and add the respective synonyms.

TAG the following condition as NORD rare and add synonym
Condition: Neurodevelopmental-craniofacial syndrome with variable renal and cardiac abnormalities MONDO:0859190
Synonyms: NECRC, ZMYM2-related neurodevelopmental disorder with multiple anomalies

ADD a term
We have a request to write a report about disorders related to DNM1 which will be entitled: "DNM1-Encephalopathy and Neurodevelopmental Disorder".
OMIM list two conditions related to the DNM1 gene mutations:
Developmental and epileptic encephalopathy 31A, autosomal dominant and Developmental and epileptic encephalopathy 31B, autosomal recessive.
I only found developmental and epileptic encephalopathy 31B in MONDO. MONDO:0957248
I did not find the subtype 31A.
Our request is to add the subtype “developmental and epileptic encephalopathy 31A" and tag NORD in both subtypes as rare as well to include the respective synonyms:
Developmental and epileptic encephalopathy 31A, autosomal dominant
Developmental and epileptic encephalopathy 31B, autosomal recessive
NOTE: Our report in NORD entitled “DNM1-Encephalopathy and Neurodevelopmental Disorder” which will include both subtypes and therefore can be include as a broad synonym too.

Please let me know if this way is better or if you would rather I made a ticket for each issue.

Thank you,

Gioconda Alyea

@sagehrke
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sagehrke commented May 2, 2024

Dear @galyea123,
Thank you for reaching out to the Mondo Disease Ontology, part of the Monarch Initiative!

We have received your ticket and will review it as soon as possible.

If you have any additional information or updates relevant to your inquiry, please add them in a comment on this ticket. Your input is valuable in helping us understand and resolve the issue effectively.

Thank you for your patience and for your contributions to Mondo!

Sincerely,
The Mondo Team

@sagehrke sagehrke added the user request A request from an external user label May 2, 2024
@sabrinatoro sabrinatoro added New term request merge on list Added to the obosletion or merge candidate list. labels May 8, 2024
@galyea123
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As an update, I found out that MONDO list "developmental and epileptic encephalopathy, 31" MONDO:0014598. However, this should be: "developmental and epileptic encephalopathy, 31A". You do list several synonyms but lack "Developmental and epileptic encephalopathy 31A, autosomal dominant" as per OMIM (also, as commented before, our report in NORD is entitled “DNM1-Encephalopathy and Neurodevelopmental Disorder” which should be included as a broad synonym for 31A and 31B subtypes (please see my original request on "Several issues". Thank you very much, Gioconda Alyea

yshwetar added a commit that referenced this issue Jul 2, 2024
closes #7641

Addresses the following
- New term 'developmental and epileptic encephalopathy, 31A'
- Places both 31A and 31B under 31
- 31B excluded subclassof 'developmental and epileptic encephalopathy'
- OMIM reference added for 31A
- NORD rare subclass label added
- Exact and broad synonyms added
yshwetar added a commit that referenced this issue Jul 2, 2024
closes #7641

Addresses the following

- New term 'developmental and epileptic encephalopathy, 31A'
- Places 31A under 31
- OMIM reference added
- NORD rare subclass label added
- Exact and broad synonyms added
yshwetar added a commit that referenced this issue Jul 8, 2024
Addresses #7641

- Updated names and synonyms to represent new medical understanding of DEE31 as DEE31A
- Updated definitions for 31A and 31B from OMIM. Included my ORCID and OMIM as annotations
- Included broad and exact synonyms, along with ORCID and OMIM annotations for these
nicolevasilevsky added a commit that referenced this issue Jul 12, 2024
* Update DEE31A and 31B

Addresses #7641

- Updated names and synonyms to represent new medical understanding of DEE31 as DEE31A
- Updated definitions for 31A and 31B from OMIM. Included my ORCID and OMIM as annotations
- Included broad and exact synonyms, along with ORCID and OMIM annotations for these

* Update definitons for 31A and 31B

Replaced broad defintion for 31A. Changed definition for 31B to be of similar structure to 31A

* Updated DEE31A and 31B definitions

Changed definition to be for developmental and epileptic encephalopathies, and not early developmental and epileptic encephalopathies.

Also added a comma to 31B naming

* Removing letter capitalization

Synonyms have letters capitalized - this was removed.

* DEE31B lower case synonym

Changed 'Disorder' to 'disorder' in synonym for 31B

* add term tracker item

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Co-authored-by: Nicole Vasilevsky <[email protected]>
@yshwetar yshwetar removed their assignment Jul 29, 2024
@sabrinatoro
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It looks like some requests here were not addressed.

@twhetzel
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Related to the term merge request, I have a related ticket for these terms and confirmed that they should be merged (through my own research and from Gioconda) so I will do the merge as part of #7687.

@sabrinatoro
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Assigning to @twhetzel as it looks like she already worked on this.

@yshwetar
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Added Github tracker and NORD tag to 31A and 31B #8356

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