Anshul Kundaje#1650
ESMC paper patch notes (June 4, 2026) are up: - major bugfix found for OpenFold3 results - minor bugfixes in protein ligand evaluations - one more BLI plot - misc typos
Our paper on ESMC, ESMFold2, and mechanistic interpretability for proteins is up on @biorxivpreprint!
We've made a few changes since the initial version went online last week.
1. We found an issue in the way we provided MSAs to OpenFold3. This led us to report lower performance of OpenFold3 on some benchmarks. This issue does not affect any of the other models evaluated.
2. We updated how we report results on Runs N' Poses to more closely match the original paper (counting only ligands with valid SuCOS similarity score). We also add a bar plot to the supplement that stratifies performance by similarity. This mostly changes the absolute values of the pass rate, not the relative performance of models.
3. Added some more BLI data to the supplement.
4. Added some missing citations, fixed typos, etc.
Check out the preprint here: https://www.biorxiv.org/content/10.64898/2026.06.03.729735v1