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[bioontology-support] [BioPortal] Feedback from Lynn Schriml

Schriml, Lynn lschriml at som.umaryland.edu
Tue Nov 17 06:15:08 PST 2020


Hello John,
  When we open the doid.owl file in our browser,
the upper level DO terms are displayed (see attachment).

Is it possible to show this same view in the BioPortal ?

Cheers,
Lynn

________________________________
From: John Graybeal <jgraybeal at stanford.edu>
Sent: Tuesday, November 17, 2020 2:45 AM
To: Schriml, Lynn <lschriml at som.umaryland.edu>
Cc: NCBO User Support <support at bioontology.org>
Subject: Re: [bioontology-support] [BioPortal] Feedback from Lynn Schriml

Lynn,

It looks like the new ontology is parsed, has the new metrics, and produces the new values.

Can you have a look and let me know if anything seems amiss?

Also, if you can drop me a line when the next update happens, or just check BioPortal the next day and see if it has updated correctly, I'd appreciate it.

Thanks for checking up on BioPortal, appreciate it!

John

On Nov 16, 2020, at 12:12 PM, Schriml, Lynn <lschriml at som.umaryland.edu<mailto:lschriml at som.umaryland.edu>> wrote:

Hello John,
Either is fine with me.

Much appreciated !!
Cheers,
Lynn
________________________________
From: John Graybeal <jgraybeal at stanford.edu<mailto:jgraybeal at stanford.edu>>
Sent: Monday, November 16, 2020 1:39 PM
To: NCBO User Support <support at bioontology.org<mailto:support at bioontology.org>>
Cc: Schriml, Lynn <lschriml at som.umaryland.edu<mailto:lschriml at som.umaryland.edu>>
Subject: Re: [bioontology-support] [BioPortal] Feedback from Lynn Schriml

Lynn,

can you give us the IRI that you want us to use?  I would expect it's either of these:
- https://raw.githubusercontent.com/DiseaseOntology/HumanDiseaseOntology/main/src/ontology/doid.owl<https://nam11.safelinks.protection.outlook.com/?url=https%3A%2F%2Fraw.githubusercontent.com%2FDiseaseOntology%2FHumanDiseaseOntology%2Fmain%2Fsrc%2Fontology%2Fdoid.owl&data=04%7C01%7Clschriml%40som.umaryland.edu%7C7cac52cb769f4897423008d88acccd57%7C717009a620de461a88940312a395cac9%7C0%7C1%7C637411960116529403%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=Z%2BS828JhAkMjnbKsTuY6x1R%2BbKT10tjsFqJvJTqeIaE%3D&reserved=0>
- http://purl.obolibrary.org/obo/doid.owl<https://nam11.safelinks.protection.outlook.com/?url=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2Fdoid.owl&data=04%7C01%7Clschriml%40som.umaryland.edu%7C7cac52cb769f4897423008d88acccd57%7C717009a620de461a88940312a395cac9%7C0%7C1%7C637411960116539397%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=oA4z%2BfZBqy1BhIGOZBX3OSGA1IMmSJAukIO%2FPSgMo4o%3D&reserved=0>

It appears we may have been configured to use the first one, but with 'master' in the IRI instead of 'main'.

I'm also taking the liberty of updating the Homepage and Documentation metadata.

John

On Nov 13, 2020, at 3:22 PM, support at bioontology.org<mailto:support at bioontology.org> wrote:

Name: Lynn Schriml
Email: lschriml at som.umaryland.edu<mailto:lschriml at som.umaryland.edu>
Location: http%3A%2F%2Fbioportal.bioontology.org<https://nam11.safelinks.protection.outlook.com/?url=http%3A%2F%2F2fbioportal.bioontology.org%2F&data=04%7C01%7Clschriml%40som.umaryland.edu%7C7cac52cb769f4897423008d88acccd57%7C717009a620de461a88940312a395cac9%7C0%7C1%7C637411960116539397%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000&sdata=OFkIVAKUkWKf4wBVTJSS%2BUajfWPQy0LBH6gyBawESLs%3D&reserved=0>%2Fontologies%2FDOID

Feedback:
Hello, I noticed that the Human Disease Ontology has not been updated in the Bioportal since 2018. We update the DO’s GitHub releases at least once a month.
Is there a problem with the ontology file ?
Thank you,
Lynn Schriml
lschriml at som.umaryland.edu<mailto:lschriml at som.umaryland.edu>
PI Human Disease Ontology

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