[bioontology-support] [BioPortal] Feedback from Brandon Rogers

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[bioontology-support] [BioPortal] Feedback from Brandon Rogers

support

Name: Brandon Rogers

Email: [hidden email]

Location: https%3A%2F%2Fbioportal.bioontology.org%2Fontologies%2FICD10CM%3Fp%3Dclasses%26conceptid%3Dhttp%253A%252F%252Fpurl.bioontology.org%252Fontology%252FICD10CM%252FB34.2%26jump_to_nav%3Dtrue


Feedback:

We have a user asking about a COVID-19 code in the ICD-10 ontology. The code in question is U07.1, and seems to be an "emergency use" code added due to the pandemic. I was not able to find this code when searching through the ICD10 or ICD10CM ontologies on BioPortal. I have pretty limited experience with ontologies in general, so I wanted to check and see if I was missing something obvious or if this code is not present in the ICD10 ontology in BioPortal. Thanks!


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Re: [bioontology-support] [BioPortal] Feedback from Brandon Rogers

John Graybeal-2
Hello Brandon,

I expect the issue here is that the code has been added to the ICD-10 ontology, but we have not imported the latest version of that ontology. We get that ontology from UMLS, and have not processed the latest release of UMLS yet. So our copy won't show the COVID codes.

John

On Dec 3, 2020, at 12:46 PM, [hidden email] wrote:

Name: Brandon Rogers

[hidden email]

Location: https%3A%2F%2Fbioportal.bioontology.org%2Fontologies%2FICD10CM%3Fp%3Dclasses%26conceptid%3Dhttp%253A%252F%252Fpurl.bioontology.org%252Fontology%252FICD10CM%252FB34.2%26jump_to_nav%3Dtrue


Feedback:

We have a user asking about a COVID-19 code in the ICD-10 ontology. The code in question is U07.1, and seems to be an "emergency use" code added due to the pandemic. I was not able to find this code when searching through the ICD10 or ICD10CM ontologies on BioPortal. I have pretty limited experience with ontologies in general, so I wanted to check and see if I was missing something obvious or if this code is not present in the ICD10 ontology in BioPortal. Thanks!


_______________________________________________
bioontology-support mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/bioontology-support

========================
John Graybeal
Technical Program Manager
Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal
Stanford Center for Biomedical Informatics Research
650-736-1632  | ORCID  0000-0001-6875-5360




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Re: [bioontology-support] [BioPortal] Feedback from Brandon Rogers

Brandon Rogers

Hi John,

 

Thanks for getting back to me. Do you happen to know a rough timeline of when those UMLS will be processed? If not that’s fine, we can just let our user know that that covid code has not been updated as of yet.

 

Thanks!

-Brandon

 

From: John Graybeal <[hidden email]>
Sent: Thursday, December 3, 2020 7:01 PM
To: support <[hidden email]>
Cc: Brandon Rogers <[hidden email]>
Subject: [EXTERNAL] Re: [bioontology-support] [BioPortal] Feedback from Brandon Rogers

 

Hello Brandon,

 

I expect the issue here is that the code has been added to the ICD-10 ontology, but we have not imported the latest version of that ontology. We get that ontology from UMLS, and have not processed the latest release of UMLS yet. So our copy won't show the COVID codes.

 

John



On Dec 3, 2020, at 12:46 PM, [hidden email] wrote:

 

Name: Brandon Rogers

[hidden email]

Location: https%3A%2F%2Fbioportal.bioontology.org [2fbioportal.bioontology.org]%2Fontologies%2FICD10CM%3Fp%3Dclasses%26conceptid%3Dhttp%253A%252F%252Fpurl.bioontology.org [252fpurl.bioontology.org]%252Fontology%252FICD10CM%252FB34.2%26jump_to_nav%3Dtrue


Feedback:

We have a user asking about a COVID-19 code in the ICD-10 ontology. The code in question is U07.1, and seems to be an "emergency use" code added due to the pandemic. I was not able to find this code when searching through the ICD10 or ICD10CM ontologies on BioPortal. I have pretty limited experience with ontologies in general, so I wanted to check and see if I was missing something obvious or if this code is not present in the ICD10 ontology in BioPortal. Thanks!

 

_______________________________________________
bioontology-support mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/bioontology-support [mailman.stanford.edu]

 

========================

John Graybeal

Technical Program Manager

Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal

Stanford Center for Biomedical Informatics Research
650-736-1632  | ORCID  0000-0001-6875-5360

 

 

 


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Re: [bioontology-support] [BioPortal] Feedback from Brandon Rogers

John Graybeal-2
Hi Brandon,

Since Stanford enters winter break on Monday 12/14, it will either be in the next week, or (most likely) in January. I was hoping by now but we haven't been able to pull it off yet, sorry!

John

On Dec 4, 2020, at 5:29 AM, Brandon Rogers <[hidden email]> wrote:

Hi John,
 
Thanks for getting back to me. Do you happen to know a rough timeline of when those UMLS will be processed? If not that’s fine, we can just let our user know that that covid code has not been updated as of yet.
 
Thanks!
-Brandon
 
From: John Graybeal <[hidden email]> 
Sent: Thursday, December 3, 2020 7:01 PM
To: support <[hidden email]>
Cc: Brandon Rogers <[hidden email]>
Subject: [EXTERNAL] Re: [bioontology-support] [BioPortal] Feedback from Brandon Rogers
 
Hello Brandon, 
 
I expect the issue here is that the code has been added to the ICD-10 ontology, but we have not imported the latest version of that ontology. We get that ontology from UMLS, and have not processed the latest release of UMLS yet. So our copy won't show the COVID codes.
 
John


On Dec 3, 2020, at 12:46 PM, [hidden email] wrote:
 
Name: Brandon Rogers
Location: https%3A%2F%2Fbioportal.bioontology.org [2fbioportal.bioontology.org]%2Fontologies%2FICD10CM%3Fp%3Dclasses%26conceptid%3Dhttp%253A%252F%252Fpurl.bioontology.org [252fpurl.bioontology.org]%252Fontology%252FICD10CM%252FB34.2%26jump_to_nav%3Dtrue

Feedback:
We have a user asking about a COVID-19 code in the ICD-10 ontology. The code in question is U07.1, and seems to be an "emergency use" code added due to the pandemic. I was not able to find this code when searching through the ICD10 or ICD10CM ontologies on BioPortal. I have pretty limited experience with ontologies in general, so I wanted to check and see if I was missing something obvious or if this code is not present in the ICD10 ontology in BioPortal. Thanks!
 
_______________________________________________
bioontology-support mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/bioontology-support [mailman.stanford.edu]
 
======================== 
John Graybeal
Technical Program Manager
Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal
Stanford Center for Biomedical Informatics Research
650-736-1632  | ORCID  0000-0001-6875-5360
 
 
 

========================
John Graybeal
Technical Program Manager
Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal
Stanford Center for Biomedical Informatics Research
650-736-1632  | ORCID  0000-0001-6875-5360




_______________________________________________
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[hidden email]
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Re: [bioontology-support] [BioPortal] Feedback from Brandon Rogers

Brandon Rogers

Sounds good to me, John. Thanks for your help and I hope you all have a nice winter break and holiday season!

 

From: John Graybeal <[hidden email]>
Sent: Friday, December 4, 2020 2:04 PM
To: Brandon Rogers <[hidden email]>
Cc: support <[hidden email]>
Subject: [EXTERNAL] Re: [bioontology-support] [BioPortal] Feedback from Brandon Rogers

 

Hi Brandon,

 

Since Stanford enters winter break on Monday 12/14, it will either be in the next week, or (most likely) in January. I was hoping by now but we haven't been able to pull it off yet, sorry!

 

John



On Dec 4, 2020, at 5:29 AM, Brandon Rogers <[hidden email]> wrote:

 

Hi John,

 

Thanks for getting back to me. Do you happen to know a rough timeline of when those UMLS will be processed? If not that’s fine, we can just let our user know that that covid code has not been updated as of yet.

 

Thanks!

-Brandon

 

From: John Graybeal <[hidden email]> 
Sent: Thursday, December 3, 2020 7:01 PM
To: support <[hidden email]>
Cc: Brandon Rogers <[hidden email]>
Subject: [EXTERNAL] Re: [bioontology-support] [BioPortal] Feedback from Brandon Rogers

 

Hello Brandon, 

 

I expect the issue here is that the code has been added to the ICD-10 ontology, but we have not imported the latest version of that ontology. We get that ontology from UMLS, and have not processed the latest release of UMLS yet. So our copy won't show the COVID codes.

 

John




On Dec 3, 2020, at 12:46 PM, [hidden email] wrote:

 

Name: Brandon Rogers

Location: https%3A%2F%2Fbioportal.bioontology.org [2fbioportal.bioontology.org]%2Fontologies%2FICD10CM%3Fp%3Dclasses%26conceptid%3Dhttp%253A%252F%252Fpurl.bioontology.org [252fpurl.bioontology.org]%252Fontology%252FICD10CM%252FB34.2%26jump_to_nav%3Dtrue


Feedback:

We have a user asking about a COVID-19 code in the ICD-10 ontology. The code in question is U07.1, and seems to be an "emergency use" code added due to the pandemic. I was not able to find this code when searching through the ICD10 or ICD10CM ontologies on BioPortal. I have pretty limited experience with ontologies in general, so I wanted to check and see if I was missing something obvious or if this code is not present in the ICD10 ontology in BioPortal. Thanks!

 

_______________________________________________
bioontology-support mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/bioontology-support [mailman.stanford.edu]

 

======================== 

John Graybeal

Technical Program Manager

Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal

Stanford Center for Biomedical Informatics Research
650-736-1632  | ORCID  0000-0001-6875-5360

 

 

 

 

========================

John Graybeal

Technical Program Manager

Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal

Stanford Center for Biomedical Informatics Research
650-736-1632  | ORCID  0000-0001-6875-5360

 

 

 


_______________________________________________
bioontology-support mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/bioontology-support