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monarch-initiative / dipper

Data Ingestion Pipeline for Monarch
https://dipper.readthedocs.io/en/latest/
BSD 3-Clause "New" or "Revised" License
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Remove gene-ortholog as potential models from wormbase ingest #330

Closed kshefchek closed 7 years ago

kshefchek commented 8 years ago

On: https://beta.monarchinitiative.org/disease/DOID:10582#models

ZK550.5 (gene) is a model of Refsum disease prx-12 (gene) is a model of Refsum disease

Typically models are genotypes or models (whole organisms), rather than genes

From wormbase:

Automatically inferred from human protein orthology ZK550.5 is a potential model for Refsum disease (DOID:10582)

Should we be filtering these out of the ingest script, or modeling them in some other way? cc @mbrush My vote would be to remove these all together since we already have this information in our database (the ortholog and ortholog-disease associations).

kshefchek commented 7 years ago

Closing as these associations provide useful publications, for example https://www.ncbi.nlm.nih.gov/pubmed/22690333 and https://www.ncbi.nlm.nih.gov/pubmed/18086896 for fanconi anemia.