arXiv AI By Florian Rottach, Sebastian Schieferdecker, William Rudman, Randall Balestriero, Carsten Eickhoff

Mol-JEPA: A multimodal Joint Embedding Predictive Architecture for Molecules

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Mol-JEPA is a scalable multimodal framework that learns molecular world models by using modality masking instead of suboptimal perturbations. It incorporates diverse data such as molecular structures, cellular phenotypes, binding affinities, ADMET profiles, quantum chemistry simulations, and other drug‑discovery information. Benchmarks show that the representations it learns perform strongly, highlighting the benefit of embedding biochemical context via latent‑space prediction.

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arXiv Machine Learning
22h ago

AceFF: A State-of-the-Art Machine Learning Potential for Small Molecules

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 Machine Learning
Sep 22

MolSC: Leveraging Substituent Contributions to Enhance Fine-grained Molecular Understanding in LLMs

MolSC is a new dataset of 181,000 substituent-level examples that captures how attaching specific substituents to molecular scaffolds changes properties such as bioactivity and physicochemical descriptors. The authors also provide MolSC-Bench, a held‑out benchmark of 1,541 examples that are disjoint from MolSC at scaffold, substituent, and molecule levels. Experiments show that training molecular large language models on MolSC markedly improves their ability to predict substituent contributions, outperforming existing models on a range of downstream chemistry tasks.

By Hyuntae Park, Sooyeon Kim, Jiwon Park, SangKeun Lee