Explore PyCTD

[cthoyt]

• start with a given gene
• use query.get_chem_gene_interaction_actions with the filter for the gene you want and also interaction_action='inhibitor' (I think 'inhibitor' is the right one, you can also check that)
• print a BEL statement

[cthoyt]

I'd also suggest doing this in a jupyter notebook before writing a huge library full of it

[aramgrigoryan]

the library has issues...
simple examples from the documentation aren't working

[aramgrigoryan]

to save genes names
app, akt1

[cthoyt]

What did you do? Can't help without seeing the code :p

[aramgrigoryan]

is the same problems as Christian had...

[cthoyt]

share your code with me

[aramgrigoryan]

what about this now?

[cthoyt]

Need to explore a couple more things:

1. How many entities can be matched to either ChEBI names or synonyms from ChEBI?
2. How many remaining entities can be matched by using ChemSpider and only find one search result?
3. how many have multiple search results (looks like we'll be doing some manual chemistry curation!)?
4. for how many are we really screwed?

[aramgrigoryan]

this kinda feels left out

[cthoyt]

yeah this is sidelined for a bit