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Spatial transcriptomics assays are rapidly increasing in scale and complexity, making computational analysis a major bottleneck in biological discovery. Although frontier AI agents have improved dramatically at software engineering and…

Artificial Intelligence · Computer Science 2026-01-06 Kenny Workman , Zhen Yang , Harihara Muralidharan , Hannah Le

Agent-based modeling plays an essential role in gaining insights into biology, sociology, economics, and other fields. However, many existing agent-based simulation platforms are not suitable for large-scale studies due to the low…

Distributed, Parallel, and Cluster Computing · Computer Science 2023-04-25 Lukas Breitwieser , Ahmad Hesam , Fons Rademakers , Juan Gómez Luna , Onur Mutlu

Computer use agents represent an emerging area in artificial intelligence, aiming to operate computers autonomously to fulfill user tasks, attracting significant attention from both industry and academia. However, the performance of…

Artificial Intelligence · Computer Science 2026-01-23 Yuhao Cheng , Liang Tang , Shuxian Li , Yukang Huo , Tiaonan Duan , Kaer Huang , Yanzhe Jing , Yiqiang Yan

Due to decelerating gains in single-core CPU performance, computationally expensive simulations are increasingly executed on highly parallel hardware platforms. Agent-based simulations, where simulated entities act with a certain degree of…

Multiagent Systems · Computer Science 2018-07-04 Jiajian Xiao , Philipp Andelfinger , David Eckhoff , Wentong Cai , Alois Knoll

Edge computing breaks with traditional autoscaling due to strict resource constraints, thus, motivating more flexible scaling behaviors using multiple elasticity dimensions. This work introduces an agent-based autoscaling framework that…

Artificial Intelligence · Computer Science 2026-01-13 Boris Sedlak , Alireza Furutanpey , Zihang Wang , Víctor Casamayor Pujol , Schahram Dustdar

Engineered image-based biomarkers offer a clinically interpretable alternative to black-box AI in computational pathology, yet their discovery remains largely intuition-driven, guided by fragmented literature rather than rigorous biological…

In decision support systems, it is essential to get a candidate solution fast, even if it means resorting to an approximation. This constraint introduces a scalability requirement with regard to the kind of heuristics which can be used in…

Multiagent Systems · Computer Science 2014-05-22 D. Krzywicki , Ł. Faber , A. Byrski , M. Kisiel-Dorohinicki

Natural selection is general and powerful concept not only to explain evolutionary processes of biological organisms but also to design engineering systems such as genetic algorithms and particle filters. There is a surge of interest, both…

Populations and Evolution · Quantitative Biology 2021-06-09 So Nakashima , Tetsuya J. Kobayashi

Modern films, games and virtual reality applications are dependent on convincing computer graphics. Highly complex models are a requirement for the successful delivery of many scenes and environments. While workflows such as rendering,…

Neural and Evolutionary Computing · Computer Science 2016-04-21 Jan Kruse , Andy M. Connor

Frontier scientific reasoning is rapidly emerging as a key foundation for advancing AI agents in automated scientific discovery. Deep research agents offer a promising approach to this challenge. These models develop robust problem-solving…

Artificial Intelligence · Computer Science 2026-05-27 Tianshi Zheng , Rui Wang , Xiyun Li , Kelvin Kiu Wai Tam , Newt Nguyen Kim Hue Nam , Wei Fan , Yangqiu Song , Tianqing Fang

Autonomous agents driven by Large Language Models (LLMs) have revolutionized reasoning and problem-solving but remain static after training, unable to grow with experience as intelligent beings do during deployment. We introduce Forward…

Machine Learning · Computer Science 2025-12-09 Zhicheng Cai , Xinyuan Guo , Yu Pei , Jiangtao Feng , Jinsong Su , Jiangjie Chen , Ya-Qin Zhang , Wei-Ying Ma , Mingxuan Wang , Hao Zhou

Event log data, recording fine-grained user actions and system events, represent one of the most valuable assets for modern digital services. However, the complexity and heterogeneity of industrial event logs--characterized by large scale,…

Artificial Intelligence · Computer Science 2026-04-23 Kun Ouyang , Haoyu Wang , Dong Fang

The scaling up of deep neural networks has been demonstrated to be effective in improving model quality, but also encompasses several training challenges in terms of training efficiency, programmability, and resource adaptability. We…

Distributed, Parallel, and Cluster Computing · Computer Science 2022-06-07 Xianyan Jia , Le Jiang , Ang Wang , Wencong Xiao , Ziji Shi , Jie Zhang , Xinyuan Li , Langshi Chen , Yong Li , Zhen Zheng , Xiaoyong Liu , Wei Lin

Biological phenotypes are products of complex evolutionary processes in which selective forces influence multiple biological trait measurements in unknown ways. Phylogenetic factor analysis disentangles these relationships across the…

AI-based systems, currently driven largely by LLMs and tool-using agentic harnesses, are increasingly discussed as a possible threat to software engineering. Foundation models get stronger, agents can plan and act across multiple steps, and…

Software Engineering · Computer Science 2026-04-24 Robert Feldt , Per Lenberg , Julian Frattini , Dhasarathy Parthasarathy

Co-evolution is a powerful problem-solving approach. However, fitness evaluation in co-evolutionary algorithms can be computationally expensive, as the quality of an individual in one population is defined by its interactions with many (or…

Neural and Evolutionary Computing · Computer Science 2024-04-11 Jack Garbus , Thomas Willkens , Alexander Lalejini , Jordan Pollack

Recently, many evolutionary computation methods have been developed to solve the feature selection problem. However, the studies focused mainly on small-scale issues, resulting in stagnation issues in local optima and numerical instability…

Neural and Evolutionary Computing · Computer Science 2021-10-28 Xubin Wang , Yunhe Wang , Ka-Chun Wong , Xiangtao Li

Deep Research systems based on web agents have shown strong potential in solving complex information-seeking tasks, yet their search efficiency remains underexplored. We observe that many state-of-the-art open-source web agents rely on long…

Artificial Intelligence · Computer Science 2026-05-11 Junjie Wang , Zequn Xie , Dan Yang , Jie Feng , Yue Shen , Duolin Sun , Meixiu Long , Yihan Jiao , Zhehao Tan , Jian Wang , Peng Wei , Jinjie Gu

The evolution of molecular dynamics (MD) simulations has been intimately linked to that of computing hardware. For decades following the creation of MD, simulations have improved with computing power along the three principal dimensions of…

As single-cell RNA sequencing datasets grow in adoption, scale, and complexity, data analysis remains a bottleneck for many research groups. Although frontier AI agents have improved dramatically at software engineering and general data…

Genomics · Quantitative Biology 2026-02-11 Kenny Workman , Zhen Yang , Harihara Muralidharan , Aidan Abdulali , Hannah Le