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Genomic question answering often requires complex reasoning and integration across diverse biomedical sources. GeneGPT addressed this challenge by combining domain-specific APIs with OpenAI's code-davinci-002 large language model to enable…

人工智能 · 计算机科学 2025-11-20 Haodong Chen , Guido Zuccon , Teerapong Leelanupab

Biomedical ontologies, which comprehensively define concepts and relations for biomedical entities, are crucial for structuring and formalizing domain-specific information representations. Biomedical code mapping identifies similarity or…

信息检索 · 计算机科学 2025-02-27 Hui Feng , Yuntzu Yin , Emiliano Reynares , Jay Nanavati

Understanding the genetic basis of complex traits is a longstanding challenge in the field of genomics. Genome-wide association studies (GWAS) have identified thousands of variant-trait associations, but most of these variants are located…

While Large Language Models (LLMs) have demonstrated potential in healthcare, they often struggle with the complex, non-linear reasoning required for accurate clinical diagnosis. Existing methods typically rely on static, linear mappings…

计算与语言 · 计算机科学 2026-05-28 Zhuohan Ge , Haoyang Li , Yubo Wang , Nicole Hu , Chen Jason Zhang , Qing Li

We introduce a multicrossmodal LLM-agent framework motivated by the growing volume and diversity of materials-science data ranging from high-resolution microscopy and dynamic simulation videos to tabular experiment logs and sprawling…

材料科学 · 物理学 2025-05-22 Adib Bazgir , Rama chandra Praneeth Madugula , Yuwen Zhang

Large language models (LLMs) are catalyzing the development of autonomous AI research agents for scientific and engineering discovery. We present FM Agent, a novel and general-purpose multi-agent framework that leverages a synergistic…

Code generation models based on large language models (LLMs) have gained wide adoption, but challenges remain in ensuring safety, accuracy, and controllability, especially for complex tasks. Existing methods often lack dynamic integration…

软件工程 · 计算机科学 2025-10-13 Aofan Liu , Haoxuan Li , Bin Wang , Ao Yang , Hui Li

The rapid growth in the volume, variety, and velocity of geospatial data has created data ecosystems that are highly distributed, heterogeneous, and semantically inconsistent. Existing data catalogs, portals, and infrastructures still rely…

人工智能 · 计算机科学 2026-03-25 Ruixiang Liu , Zhenlong Li , Ali Khosravi Kazazi

Pre-trained on massive amounts of code and text data, large language models (LLMs) have demonstrated remarkable achievements in performing code generation tasks. With additional execution-based feedback, these models can act as agents with…

计算与语言 · 计算机科学 2024-11-14 Jierui Li , Hung Le , Yingbo Zhou , Caiming Xiong , Silvio Savarese , Doyen Sahoo

With the development of artificial intelligence, its contribution to science is evolving from simulating a complex problem to automating entire research processes and producing novel discoveries. Achieving this advancement requires both…

Neural Architecture Search (NAS) aims to automatically discover high-performing deep neural network (DNN) architectures. However, conventional algorithm-driven NAS relies on carefully hand-crafted search spaces to ensure executability,…

机器学习 · 计算机科学 2026-04-21 Masakazu Yoshimura , Zitang Sun , Yuiko Sakuma , Junji Otsuka , Atsushi Irie , Takeshi Ohashi

Modern DNA sequencing technologies enable geneticists to rapidly identify genetic variation among many human genomes. However, isolating the minority of variants underlying disease remains an important, yet formidable challenge for medical…

基因组学 · 定量生物学 2015-06-15 Uma Paila , Brad Chapman , Rory Kirchner , Aaron Quinlan

Computing has long served as a cornerstone of scientific discovery. Recently, a paradigm shift has emerged with the rise of large language models (LLMs), introducing autonomous systems, referred to as agents, that accelerate discovery…

Large language models (LLMs) have shown growing promise in biomedical research, particularly for knowledge-driven interpretation tasks. However, their ability to reliably reason from gene-level knowledge to functional understanding, a core…

基因组学 · 定量生物学 2026-05-25 Xiaohan Huang , Meng Xiao , Chuan Qin , Qingqing Long , Jinmiao Chen , Yuanchun Zhou , Hengshu Zhu

Large Language Models (LLMs) have demonstrated remarkable capabilities across a wide range of language tasks, yet complex multi-step reasoning remains a fundamental challenge. While Large Reasoning Models (LRMs) equipped with extended…

人工智能 · 计算机科学 2026-03-17 Guangfu Hao , Yuming Dai , Xianzhe Qin , Shan Yu

Large Language Models (LLMs) have extended their impact beyond Natural Language Processing, substantially fostering the development of interdisciplinary research. Recently, various LLM-based agents have been developed to assist scientific…

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…

Translational medicine turns underspecified development goals into evidence synthesis that must combine literature, trials, patents, and quantitative multi-omics analysis while preserving identifiers, uncertainty, and retrievable…

Neuroscience data are highly fragmented across labs, formats, and experimental paradigms, and reuse often requires substantial manual effort. A persistent roadblock to data reuse and integration is the need to decipher bespoke and diverse…

机器学习 · 计算机科学 2026-05-15 Ling-Qi Zhang , Kristin Branson