search

NCATSTranslator / Tests

3 stars 2 forks source link

Asset 392: bad answer ID for DNMT inhibitor #80

Open colleenXu opened 2 months ago

colleenXu commented 2 months ago

Asset 392 says the expected output name is DNMT inhibitor. However, the output ID CHEMBL:4034633 is not a proper CURIE and appears to be an assay/document ID, not a chemical entity.

Using the Chembl API, I find this info on the document but it doesn't mention what the chemical used is (click here)

[The Target ID is also odd](https://www.ebi.ac.uk/chembl/g/#search_results/all/query=CHEMBL612545) and seems to lack info. ``` { "aidx": "941973", "assay_category": null, "assay_cell_type": null, "assay_chembl_id": "CHEMBL4034633", "assay_classifications": [], "assay_organism": "Homo sapiens", "assay_parameters": [], "assay_strain": null, "assay_subcellular_fraction": null, "assay_tax_id": 9606, "assay_test_type": null, "assay_tissue": null, "assay_type": "B", "assay_type_description": "Binding", "bao_format": "BAO_0000219", "bao_label": "cell-based format", "cell_chembl_id": null, "confidence_description": "Default value - Target unknown or has yet to be assigned", "confidence_score": 0, "description": "Inhibition of DNMT in human U937 cells assessed as induction of P16 CpG islands demethylation at 1 to 2.5 uM after 36 hrs by PCR analysis", "document_chembl_id": "CHEMBL4033641", "relationship_description": "Default value - Target has yet to be curated", "relationship_type": "U", "src_assay_id": null, "src_id": 1, "target_chembl_id": "CHEMBL612545", "tissue_chembl_id": null, "variant_sequence": null } ```

If this test is kept, I imagine the expected output ID needs to be changed.

colleenXu commented 2 months ago

Related to other issues:

maximusunc commented 2 months ago

Name Resolver suggests this curie: UMLS:C2746050. Thoughts?

gaurav commented 2 months ago

That does seem like the best identifier, although it's a single-identifier clique and a UMLS term. I would have loved a CHEMBL or CHEBI term, but I can't find one.

colleenXu commented 2 months ago

Perhaps the original writer of the asset could help? Maybe a specific DNMT inhibitor chemical could be used as the answer?

maximusunc commented 2 months ago

This asset doesn't have a writer specified, but an educated guess is @sstemann ?