Data Associated with "Can deep learning models for drug sensitivity prediction truly transfer knowledge from bulk to single cell data?"

This Zenodo record contains all data necessary to reproduce the benchmark results described in the following publication:

M. Bohl, M. Esteban-Medina, and K. Lenhof, Can deep learning models for drug sensitivity prediction truly transfer knowledge from bulk to single-cell data? bioRxiv (2025).

• Processed GDSC and single-cell RNA-Seq datasets are in processed.zip
• scATD model weights are in checkpoint_fold1_epoch_30.pth
• Full hyperparameter tuning logs/results are in hyperparameter_tuning_results.csv
• The first version of the source code (without model weights) is in code.zip. In case it gets updated in the future, check the latest version at https://github.com/cbg-ethz/SC-Bulk-Domain-Adaptation/