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Goal-oriented de novo molecule design, namely generating molecules with specific property or substructure constraints, is a crucial yet challenging task in drug discovery. Existing methods, such as Bayesian optimization and reinforcement…

Computational Engineering, Finance, and Science · Computer Science 2025-02-28 Chuanliu Fan , Ziqiang Cao , Zicheng Ma , Nan Yu , Yimin Peng , Jun Zhang , Yiqin Gao , Guohong Fu

Designing nuclear reactor cores requires navigating large discrete design spaces governed by complex neutronic interactions. Traditional deterministic, metaheuristic, and machine-learning-assisted methods search within fixed, human-defined…

Machine Learning · Computer Science 2025-12-19 Yoonpyo Lee

Automating molecular design using deep reinforcement learning (RL) holds the promise of accelerating the discovery of new chemical compounds. Existing approaches work with molecular graphs and thus ignore the location of atoms in space,…

Machine Learning · Statistics 2021-03-02 Gregor N. C. Simm , Robert Pinsler , José Miguel Hernández-Lobato

Motivation: The development of novel compounds targeting proteins of interest is one of the most important tasks in the pharmaceutical industry. Deep generative models have been applied to targeted molecular design and have shown promising…

Machine Learning · Computer Science 2022-09-05 Gökçe Uludoğan , Elif Ozkirimli , Kutlu O. Ulgen , Nilgün Karalı , Arzucan Özgür

Deep learning has achieved tremendous success in designing novel chemical compounds with desirable pharmaceutical properties. In this work, we focus on a new type of drug design problem -- generating a small "linker" to physically attach…

Machine Learning · Computer Science 2022-05-17 Yinan Huang , Xingang Peng , Jianzhu Ma , Muhan Zhang

Deep generative models are able to suggest new organic molecules by generating strings, trees, and graphs representing their structure. While such models allow one to generate molecules with desirable properties, they give no guarantees…

Machine Learning · Computer Science 2019-12-05 John Bradshaw , Brooks Paige , Matt J. Kusner , Marwin H. S. Segler , José Miguel Hernández-Lobato

A novel framework has recently been proposed for designing the molecular structure of chemical compounds with a desired chemical property using both artificial neural networks and mixed integer linear programming. In this paper, we design a…

The generation of molecules with desired properties has become increasingly popular, revolutionizing the way scientists design molecular structures and providing valuable support for chemical and drug design. However, despite the potential…

Machine Learning · Computer Science 2024-03-05 Yin Fang , Ningyu Zhang , Zhuo Chen , Lingbing Guo , Xiaohui Fan , Huajun Chen

Since the advent of machine learning, interpretability has remained a persistent challenge, becoming increasingly urgent as generative models support high-stakes applications in drug and material discovery. Recent advances in large language…

Machine Learning · Computer Science 2025-12-10 Jaron Cohen , Alexander G. Hasson , Sara Tanovic

While Large Language Models (LLMs) excel at function-level code generation, project-level tasks such as generating functional and visually aesthetic multi-page websites remain highly challenging. Existing works are often limited to…

Computation and Language · Computer Science 2026-04-23 Juyong Jiang , Chenglin Cai , Chansung Park , Jiasi Shen , Sunghun Kim , Jianguo Li , Yue Wang

Despite the extensive usage of oxide glasses for a few millennia, the composition-property relationships in these materials still remain poorly understood. While empirical and physics-based models have been used to predict properties, these…

Large Language Models (LLMs) have substantially driven scientific progress in various domains, and many papers have demonstrated their ability to tackle complex problems with creative solutions. Our paper introduces a new foundation model,…

The diverse combinations of novel building blocks offer a vast design space for hydrogen-boned frameworks (HOFs), rendering it a great promise for gas separation and purification. However, the underlying separation mechanism facilitated by…

Chemical Physics · Physics 2025-05-12 Yong Qiu , Lei Wang , Letian Chen , Yun Tian , Zhen Zhou , Jianzhong Wu

Computer-driven molecular design combines the principles of chemistry, physics, and artificial intelligence to identify novel chemical compounds and materials with desired properties for a specific application. In particular,…

Chemical Physics · Physics 2023-09-04 Alessio Fallani , Leonardo Medrano Sandonas , Alexandre Tkatchenko

Designing mechanical linkages involves combinatorial topology selection and continuous parameter fitting. We show that language models can systematically improve linkage designs through symbolic representations. Language model agents…

Artificial Intelligence · Computer Science 2026-05-01 João Pedro Gandarela , Thiago Rios , Stefan Menzel , André Freitas

We introduce MediX-R1, an open-ended Reinforcement Learning (RL) framework for medical multimodal large language models (MLLMs) that enables clinically grounded, free-form answers beyond multiple-choice formats. MediX-R1 fine-tunes a…

Computer Vision and Pattern Recognition · Computer Science 2026-02-27 Sahal Shaji Mullappilly , Mohammed Irfan Kurpath , Omair Mohamed , Mohamed Zidan , Fahad Khan , Salman Khan , Rao Anwer , Hisham Cholakkal

Molecular property prediction is crucial for drug discovery and materials science, yet existing approaches suffer from limited interpretability, poor cross-task generalization, and lack of chemical reasoning capabilities. Traditional…

Machine Learning · Computer Science 2025-10-20 Jiaxi Zhuang , Yaorui Shi , Jue Hou , Yunong He , Mingwei Ye , Mingjun Xu , Yuming Su , Linfeng Zhang , Ying Qian , Linfeng Zhang , Guolin Ke , Hengxing Cai

Large language models (LLMs) offer new opportunities for automated data extraction and property prediction across materials science, yet their use in superconductivity research remains limited. Here we construct a large experimental…

Materials Science · Physics 2025-12-12 Suman Itani , Yibo Zhang , Ranjit Itani , Jiadong Zang

The potential number of drug like small molecules is estimated to be between 10^23 and 10^60 while current databases of known compounds are orders of magnitude smaller with approximately 10^8 compounds. This discrepancy has led to an…

Machine Learning · Computer Science 2017-05-18 Esben Jannik Bjerrum , Richard Threlfall

Efficiently retrieving an enormous chemical library to design targeted molecules is crucial for accelerating drug discovery, organic chemistry, and optoelectronic materials. Despite the emergence of generative models to produce novel…

Computational Engineering, Finance, and Science · Computer Science 2024-09-13 Zijun Chen , Yu Wang , Liuzhenghao Lv , Hao Li , Zongying Lin , Li Yuan , Yonghong Tian
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