DeepMind Blog

Agentic cheminformatics with Google Antigravity

The article discusses how Google Antigravity, combined with DeepMind’s Cheminformatics Skills, can speed up drug discovery processes. It explains how these tools help researchers search for compounds and suggest new rigidified macrocycles. The focus is on accelerating workflow efficiency in pharmaceutical research.

arXiv AI
Aug 13

A Modular Agentic Framework for Synthetically Constrained Multi-Objective Hit-to-Lead Optimization

arXiv:2608. 11483v1 Announce Type: new Abstract: Hit-to-lead optimization requires iterative design of hit analogs across competing potency, selectivity, physicochemical, pharmacokinetic, safety, and synthetic constraints.

By Kelvin P. Idanwekhai, Enes Kelestemur, Benjamin Strickland, Matthew Hart, Steini Davidsson, Angelos Angelopoulos, Ron Alterovitz, Marcello DeLuca, Alexander Tropsha
arXiv AI
Oct 15

MADDIE: Multi-Agent Drug Discovery Engine

arXiv:2610.16975v1 Announce Type: new Abstract: Drug discovery remains a resource-intensive and time-consuming process, involving billions of dollars and a decade of development to advance a drug to...

By Ye Liu, Reza Averly, Avery Meyer, Frazier N. Baker, Ruoxi Gao, Daniel Adu-Ampratwum, Xia Ning
arXiv AI
Oct 31

PepEVOLVE: Position-Aware Dynamic Peptide Optimization via Group-Relative Advantage

PepEVOLVE is a dynamic, position‑aware framework for optimizing macrocyclic peptides that learns where to edit and how to improve multiple properties. It enhances pretraining with dynamic masking and CHUCKLES shifting, employs a multi‑armed‑bandit router to identify high‑reward residues, and uses an evolving optimization algorithm with group‑relative advantage to stabilize updates. In in‑silico tests on a Rev‑binding macrocycle benchmark, PepEVOLVE surpassed PepINVENT, achieving higher permeability‑weighted scores and converging faster while respecting structural constraints.

By Trieu Nguyen, Hao-Wei Pang, Shasha Feng
arXiv AI
23h ago

PharmAgents2: Towards Autonomous End-to-End Drug Discovery

arXiv:2611.07653v1 Announce Type: new Abstract: Drug discovery requires continuous scientific decision-making across a vast research space. We introduce PharmAgents2, an autonomous system for end-to-...

By Haichuan Tan, Bowen Gao, Tao Huang, Jiaxin Tan, Xin Hong, Baoguo Yao, Yifei Wang, Zhichao Deng, Hanji Du, Dapeng Jiang, Yiheng Li, Weiwei Ma, Xin Ma, Yuqi Shi, Zixiang Wang, Kelin Wu, Tianxiang Wu, Wenxuan Xie, Jie Zang, Huiyu Zhang, Mojia Zhang, Yuying Zhang, Ya-Qin Zhang, Wei-Ying Ma, Yanyan Lan
arXiv Machine Learning
Jul 14

Vilya-1: An all-atom foundation model for macrocycle structure prediction and design

arXiv:2607. 09998v1 Announce Type: new Abstract: Macrocyclic peptides are an increasingly important therapeutic modality, but existing computational methods for modeling their structures and properties are limited in scope and do not generalize well across the synthetically accessible chemical space.

By Vilya Research, :, Pascal Sturmfels, Milad Salem, Naozumi Hiranuma, Stephen Rettie, Xiaoliang Pan, Benjamin D. Sellers, Adam P. Moyer, Patrick J. Salveson, Ivan Anishchanka
arXiv AI
Sep 2

MMAI Gym for Science: Training Liquid Foundation Models for Drug Discovery

arXiv:2603.03517v2 Announce Type: replace-cross Abstract: General-purpose large language models (LLMs) that rely on in-context learning do not reliably deliver the scientific understanding and perfor...

By Maksim Kuznetsov, Zulfat Miftahutdinov, Rim Shayakhmetov, Mikolaj Mizera, Roman Schutski, Bogdan Zagribelnyy, Ivan Ilin, Nikita Bondarev, Thomas MacDougall, Mathieu Reymond, Mihir Bafna, Kaeli Kaymak-Loveless, Eugene Babin, Maxim Malkov, Mathias Lechner, Ramin Hasani, Alexander Amini, Vladimir Aladinskiy, Alex Aliper, Alex Zhavoronkov