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The integration of large language models (LLMs) into scientific research is accelerating the realization of autonomous ``AI Scientists.'' While recent advancements have empowered AI to formulate hypotheses and design experiments, a critical…

Quantum Physics · Physics 2026-05-27 Masaki Shiraishi , Ikko Hamamura , Tatsuya Ishigaki , Tadashi Kadowaki

The Model Context Protocol (MCP) is an open and standardized interface that enables large language models (LLMs) to interact with external tools and services, and is increasingly adopted by AI agents. However, the security of MCP-based…

Cryptography and Security · Computer Science 2026-03-10 Yuhang Huang , Boyang Ma , Biwei Yan , Xuelong Dai , Yechao Zhang , Minghui Xu , Kaidi Xu , Yue Zhang

The Model Context Protocol (MCP) has emerged as a de facto standard for integrating Large Language Models with external tools, yet no formal security analysis of the protocol specification exists. We present the first rigorous security…

Cryptography and Security · Computer Science 2026-01-27 Narek Maloyan , Dmitry Namiot

Large Language Models (LLMs) are increasingly integrated into real-world applications via the Model Context Protocol (MCP), a universal open standard for connecting AI agents with data sources and external tools. While MCP enhances the…

Cryptography and Security · Computer Science 2026-02-13 Yixuan Yang , Cuifeng Gao , Daoyuan Wu , Yufan Chen , Yingjiu Li , Shuai Wang

Model Context Protocol (MCP) servers have rapidly emerged over the past year as a widely adopted way to enable Large Language Model (LLM) agents to access dynamic, real-world tools. As MCP servers proliferate and become easy to adopt via…

Cryptography and Security · Computer Science 2026-03-12 Pratyay Kumar , Miguel Antonio Guirao Aguilera , Srikathyayani Srikanteswara , Satyajayant Misra , Abu Saleh Md Tayeen

Computational data governance aims to make the enforcement of governance policies and legal obligations more efficient and reliable. Recent advances in natural language processing and agentic AI offer ways to improve how organizations share…

Emerging Technologies · Computer Science 2026-05-12 Marco Tonnarelli , Filippo Scaramuzza , Simon Harrer , Linus W. Dietz

Enterprise software engineering is shifting away from deterministic CRUD/REST architectures toward AI-native systems where large language models act as cognitive orchestrators. This transition introduces a critical security tension:…

Cryptography and Security · Computer Science 2026-04-29 Ignacio Peyrano

This paper introduces Agentic-AI Healthcare, a privacy-aware, multilingual, and explainable research prototype developed as a single-investigator project. The system leverages the emerging Model Context Protocol (MCP) to orchestrate…

Cryptography and Security · Computer Science 2025-10-06 Mohammed A. Shehab

Current AI agents create significant barriers for users by requiring extensive processing to understand web pages, making AI-assisted web interaction slow and expensive. This paper introduces webMCP (Web Machine Context & Procedure), a…

Networking and Internet Architecture · Computer Science 2025-08-14 D. Perera

The Model Context Protocol (MCP) standardizes how a large-language-model (LLM) agent and an external tool server exchange messages, but not trust: a host reads a server's self-declared tool list and dispatches calls, with no notion of which…

Cryptography and Security · Computer Science 2026-05-26 Alfredo Metere

Artificial intelligence is rapidly evolving towards multi-agent systems where numerous AI agents collaborate and interact with external tools. Two key open standards, Google's Agent to Agent (A2A) protocol for inter-agent communication and…

Multiagent Systems · Computer Science 2025-05-08 Qiaomu Li , Ying Xie

The Model Context Protocol (MCP) is emerging as a common interface connecting large language models (LLMs) with external services. Remote deployments are becoming increasingly important as agents connect to user-linked online services, such…

Cryptography and Security · Computer Science 2026-05-22 Huijun Zhou , Xiaohan Zhang , Haozhe Zhang , Haoyang Zhang , Mi Zhang , Min Yang

As Model Context Protocol (MCP) introduces an easy-to-use ecosystem for users and developers, it also brings underexplored safety risks. Its decentralized architecture, which separates clients and servers, poses unique challenges for…

Computation and Language · Computer Science 2025-09-30 Huihao Jing , Haoran Li , Wenbin Hu , Qi Hu , Heli Xu , Tianshu Chu , Peizhao Hu , Yangqiu Song

Autonomous AI agents now operate across cloud, enterprise, and decentralized domains, creating demand for registry infrastructures that enable trustworthy discovery, capability negotiation, and identity assurance. We analyze five prominent…

Large language model powered autonomous agents demand robust, standardized protocols to integrate tools, share contextual data, and coordinate tasks across heterogeneous systems. Ad-hoc integrations are difficult to scale, secure, and…

Artificial Intelligence · Computer Science 2025-05-26 Abul Ehtesham , Aditi Singh , Gaurav Kumar Gupta , Saket Kumar

This paper provides an in-depth technical analysis and implementation methodology of the open-source Agent-to-Agent (A2A) protocol developed by Google and the Model Context Protocol (MCP) introduced by Anthropic. While the evolution of…

Artificial Intelligence · Computer Science 2025-10-03 Cheonsu Jeong

The Model Context Protocol (MCP) standardizes tool use for LLM-based agents and enable third-party servers. This openness introduces a security misalignment: agents implicitly trust tools exposed by potentially untrusted MCP servers.…

Cryptography and Security · Computer Science 2026-02-25 Zhenhong Zhou , Yuanhe Zhang , Hongwei Cai , Moayad Aloqaily , Ouns Bouachir , Linsey Pang , Prakhar Mehrotra , Kun Wang , Qingsong Wen

Bioinformatics tools are essential for complex computational biology tasks, yet their integration with emerging AI-agent frameworks is hindered by incompatible interfaces, heterogeneous input-output formats, and inconsistent parameter…

Quantitative Methods · Quantitative Biology 2025-10-03 Florensia Widjaja , Zhangtianyi Chen , Juexiao Zhou

With the rapid advancement of artificial intelligence, the proliferation of autonomous agents has introduced new challenges in interoperability, scalability, and coordination. The Internet of Agents (IoA) aims to interconnect heterogeneous…

Multiagent Systems · Computer Science 2025-05-21 Jun Liu , Ke Yu , Keliang Chen , Ke Li , Yuxinyue Qian , Xiaolian Guo , Haozhe Song , Yinming Li

Although Foundation Models (FMs), such as GPT-4, are increasingly used in domains like finance and software engineering, reliance on textual interfaces limits these models' real-world interaction. To address this, FM providers introduced a…

Software Engineering · Computer Science 2026-04-14 Mohammed Mehedi Hasan , Hao Li , Emad Fallahzadeh , Gopi Krishnan Rajbahadur , Bram Adams , Ahmed E. Hassan