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pombase / pombase-chado

PomBase code for accessing Chado
MIT License
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correlated_with disease list #1183

Closed ValWood closed 6 days ago

ValWood commented 6 days ago

follow on from https://github.com/pombase/pombase-chado/issues/853

Could you provide me with the "correlated-with" disease gene list?

It could be useful to have a filter for this in the query tool

kimrutherford commented 6 days ago

Do you mean "contributes_to"?

ValWood commented 6 days ago

Yes!

kimrutherford commented 6 days ago

There are 119 contributes_to annotations. Is this all the information you need?:

disease_contributes_to.csv

uniquename name termid term_name
SPBC2G2.08 ade9 MONDO:0011120 neural tube defects, folate-sensitive
SPAC56F8.06c alg10 MONDO:0013367 long QT syndrome 2
SPAC664.14 amt2 MONDO:0859172 hemolytic disease of fetus and newborn, RH-induced
SPAC2E1P3.02c amt3 MONDO:0859172 hemolytic disease of fetus and newborn, RH-induced
... ... ... ...
kimrutherford commented 6 days ago

It could be useful to have a filter for this in the query tool

I'm working on that now. It will probably be 3-4 hours work.

ValWood commented 6 days ago

Yep!

kimrutherford commented 5 days ago

I'm working on that now. It will probably be 3-4 hours work.

I didn't get very far before we had our call and decided not do implement that. I changed one line of code. :-)

But I did establish how much work it would be so if it becomes useful to constrain by qualifier it could be done in half a day.