Applications in materials analysis, molecule design, and protein or antibody screening, together with experiments on scientific reading, idea generation, molecule generation, and antibody screening, show that SCION outperforms existing autonomous research-agent baselines, especially in decomposition, verification, refinement, and memory reuse.
Abstract
Artificial intelligence has advanced scientific discovery, but most AI4Science systems remain fragmented tools that rely on humans to coordinate problem formulation, literature grounding, model use, simulation, validation, and knowledge reuse. This paper presents \textbf{SCION (Scientific Collaborative Innovation with Agentic Organizational Nexus)}, an agentic scientific operating system that acts as an \textbf{organizational nexus}. Through a Science Agent serving as a \textbf{Meta-Harness}, SCION connects scientific tasks, tools, agents, artifacts, and memory, transforming research into an executable, auditable, and reusable operational process. At its core is the \textbf{Research Execution Plan (REP)}, which compiles high-level scientific intent into staged objectives, dependencies, verification checkpoints, tool requirements, expected artifacts, and fallback conditions. SCION further integrates hierarchical multi-agent execution, profile-driven specialization, selective context construction, governed delegation, and layered epistemic memory to support long-horizon scientific work. We formulate discovery under SCION as \textbf{Target-conditioned Inverse Search} and extend it to hidden-target settings through batch active search under finite experimental budgets. Applications in materials analysis, molecule design, and protein or antibody screening, together with experiments on scientific reading, idea generation, molecule generation, and antibody screening, show that SCION outperforms existing autonomous research-agent baselines, especially in decomposition, verification, refinement, and memory reuse. Overall, SCION shifts AI from isolated tools toward a coordinated operational layer for traceable and reusable scientific innovation.
Apodex 1.1 reaches the leading performance band despite using a substantially smaller model than many frontier systems, and the 35B-parameter Apodex 1.1 Mini further retains strong working capability in a locally deployable form.
Apodex Team B. An, B. Li, B. Wang et al.· 1 citation
This article examines the emerging paradigm of agentic AI for scientific discovery, traces the conceptual shift from tools to agents, lays out a six-stage workflow spanning literature synthesis to manuscript generation, and reviews practical systems in chemistry, equation discovery, materials science, and general machine learning research.
Alexander Taktakidze· Longevity Horizon· 0 citations
Scientific work increasingly spans heterogeneous artifacts -- papers, code, datasets, scientific file formats, model outputs, figures, manuscripts, and team decisions -- yet general-purpose AI assistants rarely preserve these objects as a coherent, auditable research state. We present SciForge, a multimodal research-native AI workbench that reserves the graphical interface for human judgment while search, parsing, model routing, workflow execution, plotting, writing, and presentation generation run as modular agent-accessible services. SciForge is built around five pillars: (i) \emph{goal-scoped scientific decision governance} for \textbf{goal-oriented} research, with review gates and shared review surfaces; (ii) \emph{translate-then-reason} for \textbf{multimodal} input, routing scientific objects through domain translators before the agent reasons; (iii) \emph{evidence governance} for \textbf{auditable} traceability, linking claims to provenance chains and audit findings; (iv) \emph{collaborative team science} for \textbf{collaborative} research, enabling multi-role decision governance, with shared team workspaces planned for future releases; and (v) \emph{real-world application scenarios} for \textbf{practical} impact, demonstrated through eight end-to-end user cases, with flagship demonstrations including multi-day agentic research sprints for gene discovery, AI-guided de novo protein design, molecular optimization, and genome-to-BGC discovery. The system combines a thin interaction layer, contextual research capability patterns, an Agent Runtime and Workflow Engine, an Evidence-DAG audit sidecar and a Scientific Model Router. SciForge currently runs as a desktop application, with mobile supervision support; future releases will deepen team collaboration. The system is open-source and available at https://github.com/AGI4Sci/SciForge
SciForge Team Zhangyang Gao, Minghao Fang, Yifei Liu et al.· 0 citations
ReasFlow is introduced, an end-to-end autonomous agent system for reasoning-centric scientific discovery that operationalizes a collaborative paradigm where the human expert acts as Principal Investigator while the agent executes rigorous derivations as a capable graduate student.
Yutong He, Daibo Li, Guohong Li et al.· 1 citation
Enabling LLM agents to sustain productive, stable, and goal-aligned research over extended horizons is a central challenge for autonomous machine learning and scientific discovery, as progress hinges on continuously managing evolving state, exploration decisions, and computational resources. Pioneering autoresearch agents, despite great success, still lack mechanisms for continuity, recovery from dead ends, and value-driven compute allocation, which inherently undermines overall search efficiency, wastes computational resources, and lowers the chance of ultimate success. To bridge this gap, we introduce ScienceFlow, an end-to-end autoresearch agent framework that organizes long-horizon research work into research segments grounded in executable workspaces. It represents research progress as recoverable executable states, enabling efficient exploration, revision, and execution. Transitions between research segments are governed by Executable-State Transition through Re-Anchoring (ESTRA), which selects either the live state or an archived state as the next anchor and determines whether to continue or redirect the research trajectory. An evidence-aware execution controller allocates resources to physical jobs based on resource availability, remaining budget, and validated progress. We evaluate ScienceFlow on tasks spanning machine learning, scientific modeling, and mathematical optimization. Results on diverse long-horizon benchmarks demonstrate its ability to sustain effective research processes, highlighted by a SOTA 70.22 percent Any-Medal score on the full MLE-bench within a 24-hour budget, outperforming prior reported results by 4.92 percentage points. The efficacy of ScienceFlow further demonstrates that efficient state management, adaptive exploration, and objective-aligned execution are critical for scaling autonomous research beyond short-horizon interactions.
Mingming Zhao, Jiqian Dong, Kangping Xu et al.· 0 citations
AI agents are evolving from answer engines into persistent teams that use tools, delegate work, learn from experience, and modify the artifacts that shape their future behavior. The defining question for deployment is no longer merely what agents can do, but who controls what they are allowed to become. We introduce logos, a pluggable layer for self-evolution and governance that strengthens existing multiagent frameworks rather than replacing them. logos compiles heterogeneous multimodal inputs, including documents, images, audio, tables, databases, APIs, and human instructions into versioned agent packs containing agents, tools, knowledge, tests, permissions, and policies. During operation, it transforms agent activity into portable, auditable event traces and applies fail-closed verification across frameworks and backends. Every learned prompt, memory, skill, tool, role, or workflow remains an untrusted release candidate until held-out execution evidence, human-controlled policy, and explicit authorization permit its promotion. This architecture enables"verifiable human-agent loop engineering": agents can act, ask, learn, and propose improvements, while humans can steer objectives, permissions, approvals, and irreversible actions without interrupting continuous operation. logos provides a living logic for accountable automation. Agents may evolve at machine speed, but only evidence and human authority can close the loop.
Yuma Ichikawa, Yamato Arai, Kosaku Kimura et al.· 0 citations