Add protein amount terms for polyubiquitin-B and stannin in blood

[Copilot]

Adds two new protein amount measurement terms to OBA for the GWAS Catalog, as requested in the issue.

New Terms Added

OBA:2100001 - level of polyubiquitin-B in blood

• Entity: PR:P0CG47 (polyubiquitin-B (human))
• Attribute: PATO:0000070 (amount)
• Location: UBERON:0000178 (blood)
• Definition: "The amount of a polyubiquitin-B (human) when measured in blood."
• References: PMID:40883583
• Status: ✅ Fully functional

OBA:2100002 - level of stannin in blood

• Entity: PR:O75324 (stannin (human))
• Attribute: PATO:0000070 (amount)
• Location: UBERON:0000178 (blood)
• Definition: Currently shows URI instead of protein name (see note below)
• References: PMID:40883583
• Status: ⚠️ Requires PRO slim update

Implementation Details

Both terms follow the standard entity_attribute_location DOSDP pattern for biological attributes measured in specific anatomical locations. The terms have been added to src/patterns/data/default/entity_attribute_location.tsv and the pattern definitions regenerated.

The correct stannin PRO ID (PR:O75324) was identified using OLS MCP search.

Action Required

Stannin (PR:O75324) needs to be added to the PRO slim before OBA:2100002 will fully resolve. The term has been created correctly, but because stannin is not yet in the imported ontology terms, the definition currently displays the full URI (http://purl.obolibrary.org/obo/PR_O75324) instead of the protein name.

Please add PR:O75324 to the PRO slim at https://github.com/obophenotype/pro_obo_slim, then refresh the merged imports and regenerate the pattern definitions.

References

• PMID:40883583
• ORCID: https://orcid.org/0000-0001-6757-4744

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[!WARNING]

Original prompt

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This section details on the original issue you should resolve

<filter_complete></filter_complete>

<issue_title>NTR: protein amount terms</issue_title>
<issue_description>New term requests for GWAS Catalog (protein amount in blood):

1- level of polyubiquitin-B in blood
2- level of stannin in blood

x-ref: PMID:40883583
orcid: https://orcid.org/0000-0001-6757-4744</issue_description>

Comments on the Issue (you are @copilot in this section)

Fixes #402

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[ai]

Please, don't use my user name for LLM commands

[aleixpuigb]

@copilot Can you find the correct 'stannin' PR ID using OLS MCP?

[Copilot]

@copilot Can you find the correct 'stannin' PR ID using OLS MCP?

Found the correct stannin PRO ID using OLS MCP search: PR:O75324 (stannin (human)).

Updated the term in commit 488d14c. The previous ID PR:O75608 was incorrect.

Note: PR:O75324 still needs to be added to the PRO slim for the term definition to fully resolve.