Create naive phenotype search

[jsstevenson]

• Given phenotype, retrieve every matching participant_id

Practically speaking, this already exists, but maybe we can define a more generalizeable output that would support similarity searches.

[ahwagner]

Practically speaking, this already exists

This is good to know–please to link to what exists today for reference and I'll take a look.

[jsstevenson]

please to link to what exists today

@ahwagner this is referring to the patient-phenotype mapping table that we discussed yesterday. Obviously there's no literal search layer on top of it but it would be pretty trivial to do so (just depends on our final strategy for platform/library/deployment) -- it's essentially already a flat file.

More interesting stretch goals, if we have time at the end, could involve defining patient similarity with reference to ontology embeddings.

[ahwagner]

this is referring to the patient-phenotype mapping table that we discussed yesterday

Okay, that makes sense. For my own reference, these are the tables where the phenotype->patient mappings exist.

[jsstevenson]

https://pypi.org/project/hpo3/