openmolecules.org

 
Home » DataWarrior » Cheminformatics » Dealing with multiple "0% inhibition" results in HTS tests
Dealing with multiple "0% inhibition" results in HTS tests [message #1603] Thu, 28 April 2022 11:25 Go to previous message
Christophe is currently offline  Christophe
Messages: 31
Registered: January 2022
Member
Hello everyone

In medicinal chemistry, batches of molecules are tested using high-throughput screening methods constraint with a concentration threshold. For example, the whole batch is used at 1 ┬ÁM and an efficacy (e.g. % inhibition) is measured at this concentration.

DW allows to calculate a ligand efficiency with these results. This is to be taken with caution as it requires extrapolating a delta G from the % inhibition.

My question: How to deal with molecules that are below their effective concentration (0% inhibition) and for which no ligand efficiency can be calculated? These molecules (more exactly all these zero results) may prevent the calculation of important parameters and/or ruin analyses such as Partial Least Squared Regression for example.
Should one remove all these zeros and retain only the molecules with activity? Is there a reasonable way to code these molecules so that the structural information they carry can still be used in some analyses?
I tried to use categorical variables and it helped for a bit. But does anyone have more experience in this area than I do?
Thanks
Best regards
 
Read Message
Read Message
Read Message
Previous Topic: t-SNE
Next Topic: Metrics to use for UMAP analysis with SkelSpheres descriptor
Goto Forum:
  


Current Time: Mon Jul 22 01:16:40 CEST 2024

Total time taken to generate the page: 0.03298 seconds