arXiv:2606. 30961v1 Announce Type: cross Abstract: Advances in deep learning architectures and representations have enabled ML-driven chemical property prediction, but state-of-the-art (SOTA) models have remained largely confined to independent codebases and lack support for diverse chemical species.
By Jacob W. Toney, Samir Darouich, Yiran Wang, Aaron G. Garrison, Johannes K\"astner, Heather J. Kulik
The paper introduces a benchmark to evaluate compositional generalisation in machine learning interatomic potentials. It comprises four tasks that test models on unseen molecules, designed so that learning underlying chemical principles should enable generalisation. Experiments show that current state‑of‑the‑art models struggle, with out‑of‑distribution errors often an order of magnitude higher than in‑distribution errors, even for foundation models pre‑trained on millions of molecules.
By Amir Masoud Nourollah, Irtaza Khalid, Stefano Leoni, Steven Schockaert
arXiv:2606. 30170v1 Announce Type: cross Abstract: Generative molecular design is shaped by simple proxy benchmarks for drug-like properties and models pretrained on large pharmaceutical datasets.
By Matthias Blaschke, Daniel Kienzle, Zsuzsanna Koczor-Benda, Julian Lorenz, Rainer Lienhart, Fabian Pauly
arXiv:2601.00581v3 Announce Type: replace-cross
Abstract: We introduce AceFF, a pre-trained machine learning interatomic potential (MLIP) optimized for small molecule drug discovery. While MLIPs have...
By Stephen E. Farr, Stefan Doerr, Antonio Mirarchi, Alireza Moradzadeh, Francesc Sabanes Zariquiey, Saee Paliwal, Gianni De Fabritiis
arXiv:2606. 17077v1 Announce Type: cross Abstract: Proton dissociation constants (pKa) are critical for functional molecule discovery and molecular modeling.
By Wang Rui, Liu Dinghao
arXiv:2602. 22822v3 Announce Type: replace Abstract: Tandem mass spectrometry (MS/MS) is central to small molecule identification, but current deep learning systems for spectrum prediction still remain difficult to evaluate and deploy in practice.
By Yunhua Zhong, Yixuan Tang, Yifan Li, Pan Liu, Zhiwen Yang, Jie Yang, Jun Xia