search

Open-Systems-Pharmacology / PK-Sim

PK-Sim® is a comprehensive software tool for whole-body physiologically based pharmacokinetic modeling
Other
103 stars 50 forks source link

SLCO1B1 Gene Names (Protein Espression/Protein Selection) #966

Open msevestre opened 6 years ago

msevestre commented 6 years ago

see https://github.com/Open-Systems-Pharmacology/Forum/issues/232

From @SCarter79

Theres an error on your "Transport Proteins", you have 3 different subtypes all labelled as SLCO1B1. The gene ID's are correct however. Can you please update the "Gene Name" field to reflect this?

UlrichSi commented 6 years ago

Might this be related to #946 ?

SCarter79 commented 6 years ago

I think so to a point, however the naming convention of transporters may differ more e.g. SLCO is a group of important solute carriers for drug movement, but the SLC (solute carrier) group includes everything from glucose to bile acid transporters. But also there is some issues with the SLCO group of transporters in PK-Sim as it will put them as efflux transporters as standard (rather than influx).

UlrichSi commented 6 years ago

@SCarter79 If we had the gene name or number added, it would at least be possible to differentiate what database origin was used in the model.

I also noticed in the past issues with the transport direction - I fully agree with you. Since this is different from the gene name issue, it might be helpful to open up a separate issue for it. Let's see what @msevestre thinks about it.

SCarter79 commented 6 years ago

I think gene name would be more helpful as the protein name should in theory be easily obtained from it? whereas gene number is more cumbersome (to me at least), but already exists in the current record.