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The idea of using deep-learning-based molecular generation to accelerate discovery of drug candidates has attracted extraordinary attention, and many deep generative models have been developed for automated drug design, termed molecular…

Biomolecules · Quantitative Biology 2024-05-01 Odin Zhang , Haitao Lin , Hui Zhang , Huifeng Zhao , Yufei Huang , Yuansheng Huang , Dejun Jiang , Chang-yu Hsieh , Peichen Pan , Tingjun Hou

Constrained generative modeling is fundamental to applications such as robotic control and autonomous driving, where models must respect physical laws and safety-critical constraints. In real-world settings, these constraints rarely take…

Machine Learning · Computer Science 2026-03-10 Xiaoxuan Liang , Saeid Naderiparizi , Yunpeng Liu , Berend Zwartsenberg , Frank Wood

Combinatorial evolution - the creation of new things through the combination of existing things - can be a powerful way to evolve rather than design technical objects such as electronic circuits. Intriguingly, this seems to be an ongoing…

Software Engineering · Computer Science 2021-11-23 Sebastian Fix , Thomas Probst , Oliver Ruggli , Thomas Hanne , Patrik Christen

The optimal layout of a complex system such as aerospace vehicles consists in placing a given number of components in a container in order to minimize one or several objectives under some geometrical or functional constraints. This paper…

Artificial Intelligence · Computer Science 2022-12-22 Juliette Gamot , Mathieu Balesdent , Arnault Tremolet , Romain Wuilbercq , Nouredine Melab , El-Ghazali Talbi

We present a new simulation scheme which allows an efficient sampling of reconfigurable supramolecular structures made of polymeric constructs functionalized by reactive binding sites. The algorithm is based on the configurational bias…

Soft Condensed Matter · Physics 2015-06-23 Robin De Gernier , Tine Curk , Galina V. Dubacheva , Ralf P. Richter , Bortolo M. Mognetti

In this work, we consider the problem of learning a hierarchical generative model of an object from a set of images which show examples of the object in the presence of variable background clutter. Existing approaches to this problem are…

Computer Vision and Pattern Recognition · Computer Science 2019-04-16 Adam Kortylewski , Aleksander Wieczorek , Mario Wieser , Clemens Blumer , Sonali Parbhoo , Andreas Morel-Forster , Volker Roth , Thomas Vetter

Advances in CAD and CAM have enabled engineers and design teams to digitally design parts with unprecedented ease. Software solutions now come with a range of modules for optimizing designs for performance requirements, generating…

Computational Engineering, Finance, and Science · Computer Science 2024-09-06 Hongrui Chen , Aditya Joglekar , Zack Rubinstein , Bradley Schmerl , Gary Fedder , Jan de Nijs , David Garlan , Stephen Smith , Levent Burak Kara

GA LLM is a hybrid framework that combines Genetic Algorithms with Large Language Models to handle structured generation tasks under strict constraints. Each output, such as a plan or report, is treated as a gene, and evolutionary…

Computation and Language · Computer Science 2025-06-17 William Shum , Rachel Chan , Jonas Lin , Benny Feng , Patrick Lau

Automated floor plan generation lies at the intersection of combinatorial search, geometric constraint satisfaction, and functional design requirements -- a confluence that has historically resisted a unified computational treatment. While…

Computer Vision and Pattern Recognition · Computer Science 2025-12-19 Mohamed Abouagour , Eleftherios Garyfallidis

Molecular dynamics (MD) is a powerful technique for studying microscopic phenomena, but its computational cost has driven significant interest in the development of deep learning-based surrogate models. We introduce generative modeling of…

Biomolecules · Quantitative Biology 2024-09-27 Bowen Jing , Hannes Stärk , Tommi Jaakkola , Bonnie Berger

Evolvable hardware (EHW) is a set of techniques that are based on the idea of combining reconfiguration hardware systems with evolutionary algorithms. In other word, EHW has two sections; the reconfigurable hardware and evolutionary…

Neural and Evolutionary Computing · Computer Science 2011-10-06 Parisa Soleimani , Reza Sabbaghi-Nadooshan , Sattar Mirzakuchaki , Mahdi Bagheri

Much scientific enquiry across disciplines is founded upon a mechanistic treatment of dynamic systems that ties form to function. A highly visible instance of this is in molecular biology, where an important goal is to determine…

Biomolecules · Quantitative Biology 2021-06-17 Xiaojie Guo , Yuanqi Du , Sivani Tadepalli , Liang Zhao , Amarda Shehu

Understanding how complex systems transition between states requires mapping the energy landscape that governs these changes. Local transition-state networks reveal the barrier architecture that explains observed behaviour and enables…

Computational Physics · Physics 2025-10-01 Qichen Xu , Anna Delin

Generating symphonic music requires simultaneously managing high-level structural form and dense, multi-track orchestration. Existing symbolic models often struggle with a "complexity-control imbalance", in which scaling bottlenecks limit…

Sound · Computer Science 2026-04-29 Xuzheng He , Nan Nan , Zhilin Wang , Ziyue Kang , Zhuoru Mo , Ao Li , Yu Pan , Xiaobing Li , Feng Yu , Xiaohong Guan

Deep generative models have significantly advanced medical imaging analysis by enhancing dataset size and quality. Beyond mere data augmentation, our research in this paper highlights an additional, significant capacity of deep generative…

Computer Vision and Pattern Recognition · Computer Science 2024-10-18 Xiaodan Xing , Junzhi Ning , Yang Nan , Guang Yang

We investigate the ability of a genetic algorithm to design cellular automata that perform computations. The computational strategies of the resulting cellular automata can be understood using a framework in which ``particles'' embedded in…

adap-org · Physics 2015-06-30 James P. Crutchfield , Melanie Mitchell , Rajarshi Das

This study proposes MCEMOL (Multi-Constrained Evolutionary Molecular Design Framework), a molecular optimization approach integrating rule-based evolution with molecular crossover. MCEMOL employs dual-layer evolution: optimizing…

Neural and Evolutionary Computing · Computer Science 2026-01-16 Shanxian Lin , Wei Xia , Yuichi Nagata , Haichuan Yang

The thermodynamic entropy of coarse-grained (CG) models stands as one of the most important properties for quantifying the missing information during the CG process and for establishing transferable (or extendible) CG interactions. However,…

Chemical Physics · Physics 2024-04-10 Jaehyeok Jin , David R. Reichman

The research of metamaterials has achieved enormous success in the manipulation of light in an artificially prescribed manner using delicately designed sub-wavelength structures, so-called meta-atoms. Even though modern numerical methods…

Optics · Physics 2019-01-31 Wei Ma , Feng Cheng , Yihao Xu , Qinlong Wen , Yongmin Liu

This study presents a system integration approach for planning schedules, sequences, tasks, and motions for reconfigurable robots to automatically disassemble constrained structures in a non-destructive manner. Such systems must adapt their…

Robotics · Computer Science 2025-09-19 Takuya Kiyokawa , Tomoki Ishikura , Shingo Hamada , Genichiro Matsuda , Kensuke Harada