Data and analysis of CD20-targeting CAR binder domains in the Bits to Binders competition

Link to paper

This repository contains the datasets and analyses from the Bits to Binders AI-driven protein binder design competition. This repository contains all of the data used to analyze the submitted sequences.

Structure

• data/ — Raw and processed datasets (sequences, structural metrics, experimental results). The most useful files here are probably "12k_all_metrics.csv" and "12k_all_results.csv".
• misc/ — Extra team methods and kickoff slides
• scripts/ — Analysis notebooks and Python scripts used to perform analysis and generate plots
  • adaptyv/ — Candidate selection for binding affinity study, and SPR results
• results/ — Plots and model outputs

Key Files

File	Description
data/12k_all_metrics.csv	Computed features for ML
data/12k_all_results.csv	Experimental results with enrichment calls (Up/Down/NotSig/Other)
scripts/adaptyv/b2b_summary.csv	Adaptyv Bio SPR results for selected candidates

Citing Bits to Binders

Kosonocky, C.W., Abel, A.M., Feller, A.L., Cifuentes Rieffer, A.E., Woolley, P.R., Lála, J., Barth, D.R., Gardner, T., Bits to Binders Competitors, Ekker, S.C., Ellington, A.D., Wierson, W.A., & Marcotte, E.M. (2026). Validation and analysis of 12,000 AI-driven CAR-T designs in the Bits to Binders competition. bioRxiv. https://doi.org/10.64898/2026.03.03.709355

@article{kosonocky2026bits,
  title={Validation and analysis of 12,000 AI-driven CAR-T designs in the Bits to Binders competition},
  author={Kosonocky, Clayton W. and Abel, Alex M. and Feller, Aaron L. and Cifuentes Rieffer, Amanda E. and Woolley, Phillip R. and L{\'a}l{\'a}, Jakub and Barth, Daryl R. and Gardner, Tynan and {Bits to Binders Competitors} and Ekker, Stephen C. and Ellington, Andrew D. and Wierson, Wesley A. and Marcotte, Edward M.},
  journal={bioRxiv},
  year={2026},
  doi={10.64898/2026.03.03.709355}
}