Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Protein expression: info missing when transporter direction is not in DB #2034

Closed
PavelBal opened this issue Jan 10, 2022 · 3 comments
Closed

Comments

@PavelBal
Copy link
Member

  1. Create new project
  2. Add individual
  3. Add transporter protein from Dababase: OATP1B1

In PK-Sim 9:

image

In PK-Sim 10, the hint is missing:

image

@msevestre
Copy link
Member

We used to set apical basolateral etc... automatically. We do not anymore. Therefore, I am not sure that this message makes sense.

@PavelBal
Copy link
Member Author

This message makes very much sense as it is about the direction, not localization. If I add expression of OATP1B1 in V9, I see a warning that "Efflux" was set by default and this might not be correct. So I would know that this is my responsibility to check the direction (it actually must be changed to "Influx").

If I add the same transporter in V10, I do not see this warning and would think that "Efflux" is coming from the DB and is the correct direction.

I realized this as I was going through the released models and was wondering why OATP1B1 is set to "Influx" there instead of "Efflux" as given by the DB. Only as I tried to rebuild this in V9 I saw that "Efflux" is as default value and not coming from the DB.

@PavelBal
Copy link
Member Author

This is still important I think.

msevestre added a commit that referenced this issue Mar 28, 2022
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

2 participants