arXiv AI By Michael Hanna, Julian Cremer, Zekiye Erarslan, Leonardo Medrano Sandonas

QALPA: Property-guided diffusion modeling for efficient exploration of chemical spaces of flexible molecules

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arXiv Machine Learning
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ElemeNet: Multiscale Molecular Machine Learning with Uncertainty Quantification Across the Periodic Table

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
arXiv Machine Learning
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Active Learning Enables Generation of Molecules that Advance the Known Pareto Front

The paper presents a closed‑loop molecule generation pipeline that iteratively retrains on new quantum‑chemical simulation data, overcoming limitations of static generative models. This approach produces molecules whose properties extend up to 0.44 standard deviations beyond the training set and improves out‑of‑distribution classification accuracy by 79%. By conditioning on thermodynamic stability during the loop, the method yields a 3.5‑fold increase in the proportion of stable, potentially synthesizable molecules.

By Evan R. Antoniuk, Peggy Li, Nathan Keilbart, Stephen Weitzner, Bhavya Kailkhura, Anna M. Hiszpanski
arXiv AI
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Mol-JEPA: A multimodal Joint Embedding Predictive Architecture for Molecules

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.

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