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The rapid growth of biomedical data, tools, and literature has created a fragmented research landscape that outpaces human expertise. While AI agents offer a solution, they typically rely on static, manually curated toolsets, limiting their…

Artificial Intelligence · Computer Science 2025-07-04 Ruofan Jin , Zaixi Zhang , Mengdi Wang , Le Cong

Multi-agent large language model (LLM) systems have shown promise for solving complex tasks through agent collaboration. However, existing frameworks assign tasks based on predefined roles without considering whether an agent can accurately…

Artificial Intelligence · Computer Science 2026-05-19 Chenyu Wang , Yang Shu

This paper introduces Agent-Based Auto Research, a structured multi-agent framework designed to automate, coordinate, and optimize the full lifecycle of scientific research. Leveraging the capabilities of large language models (LLMs) and…

Modern engineering increasingly relies on vast datasets generated by experiments and simulations, driving a growing demand for efficient, reliable, and broadly applicable modeling strategies. There is also heightened interest in developing…

Artificial Intelligence · Computer Science 2025-10-03 Yang Liu , Zaid Abulawi , Abhiram Garimidi , Doyeong Lim

Integrating Large Language Models (LLMs) into autonomous agents marks a significant shift in the research landscape by offering cognitive abilities that are competitive with human planning and reasoning. This paper explores the…

Software Engineering · Computer Science 2025-07-21 Junda He , Christoph Treude , David Lo

Recent advances in large language models have enabled AI systems to achieve expert-level performance on domain-specific scientific tasks, yet these systems remain narrow and handcrafted. We introduce SciAgent, a unified multi-agent system…

Single-cell RNA sequencing (scRNAseq) is rapidly advancing our understanding of cellular composition within complex tissues and organisms. A major limitation in most scRNAseq analysis pipelines is the reliance on manual annotations to…

Genomics · Quantitative Biology 2022-06-10 A. Ali Heydari , Oscar A. Davalos , Katrina K. Hoyer , Suzanne S. Sindi

Relational database-driven data analysis (RDB-DA) report generation, which aims to generate data analysis reports after querying relational databases, has been widely applied in fields such as finance and healthcare. Typically, these tasks…

Databases · Computer Science 2025-04-02 Wenyi Xu , Yuren Mao , Xiaolu Zhang , Chao Zhang , Xuemei Dong , Mengfei Zhang , Yunjun Gao

Single-cell RNA sequencing (scRNA-seq) technology provides high-throughput gene expression data to study the cellular heterogeneity and dynamics of complex organisms. Graph neural networks (GNNs) have been widely used for automatic cell…

Machine Learning · Computer Science 2023-12-19 Rui Yang , Wenrui Dai , Chenglin Li , Junni Zou , Dapeng Wu , Hongkai Xiong

In recent years, data science agents powered by Large Language Models (LLMs), known as "data agents," have shown significant potential to transform the traditional data analysis paradigm. This survey provides an overview of the evolution,…

Artificial Intelligence · Computer Science 2025-12-01 Maojun Sun , Ruijian Han , Binyan Jiang , Houduo Qi , Defeng Sun , Yancheng Yuan , Jian Huang

In this work, we introduce MedAgentSim, an open-source simulated clinical environment with doctor, patient, and measurement agents designed to evaluate and enhance LLM performance in dynamic diagnostic settings. Unlike prior approaches, our…

Computation and Language · Computer Science 2025-10-02 Mohammad Almansoori , Komal Kumar , Hisham Cholakkal

With the growing reliance on digital devices equipped with graphical user interfaces (GUIs), such as computers and smartphones, the need for effective automation tools has become increasingly important. While multimodal large language…

Human-Computer Interaction · Computer Science 2024-10-18 Jakub Hoscilowicz , Bartosz Maj , Bartosz Kozakiewicz , Oleksii Tymoshchuk , Artur Janicki

PET theranostics is transforming precision oncology, yet treatment response varies substantially; many patients receiving 177Lu-PSMA radioligand therapy (RLT) for metastatic castration-resistant prostate cancer (mCRPC) fail to respond,…

Systematic literature review (SLR) is foundational to evidence-based research, enabling scholars to identify, classify, and synthesize existing studies to address specific research questions. Conducting an SLR is, however, largely a manual…

Recent advances in large language models (LLMs) have enabled a new class of AI agents that automate multiple stages of the data science workflow by integrating planning, tool use, and multimodal reasoning across text, code, tables, and…

Large Language Models (LLMs) have demonstrated the ability to solve a wide range of practical tasks within multi-agent systems. However, existing human-designed multi-agent frameworks are typically limited to a small set of pre-defined…

Artificial Intelligence · Computer Science 2025-07-31 Yaolun Zhang , Xiaogeng Liu , Chaowei Xiao

Recent advances in large language models (LLMs) have enabled agentic systems that translate natural language intent into executable scientific visualization (SciVis) tasks. Despite rapid progress, the community lacks a principled and…

Autonomous science agents built on large language models (LLMs) are increasingly used to generate hypotheses, design experiments, and produce reports. However, prior work mainly targets open-ended scientific problems with subjective outputs…

Computation and Language · Computer Science 2026-03-24 Tianshu Zhang , Huan Sun

The growing complexity of power system operations has created an urgent need for intelligent, automated tools to support reliable and efficient grid management. Conventional analysis tools often require significant domain expertise and…

Systems and Control · Electrical Eng. & Systems 2025-12-25 Yihan , Wen , Xin Chen

Recent studies have demonstrated the feasibility of modeling single-cell data as natural languages and the potential of leveraging powerful large language models (LLMs) for understanding cell biology. However, a comprehensive evaluation of…

Quantitative Methods · Quantitative Biology 2025-05-14 Fan Zhang , Tianyu Liu , Zhihong Zhu , Hao Wu , Haixin Wang , Donghao Zhou , Yefeng Zheng , Kun Wang , Xian Wu , Pheng-Ann Heng
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