BioInsight: Multi-Agent Orchestration for Interactive Biomedical Knowledge Discovery

Biomedical researchers increasingly use AI-generated analyses and reports to interpret protein-level signals, but static outputs are often insufficient for research decision-making, where users need to inspect evidence, assess uncertainty, compare mechanisms, and refine hypotheses. We present \textsc{BioInsight}, a multi-agent system that moves from static biomedical report generation to interactive evidence-centered interactive interface generation. Given a disease name, a protein association table, and optional cohort metadata, BioInsight organizes disease-specific evidence through typed intermediate artifacts, including ranked pathways, literature evidence packets, protein-level reasoning notes, citation-grounded reports, dashboard schemas, and rendered interactive interfaces. The system decomposes evidence retrieval from mechanistic reasoning, normalizes citations through deterministic components, and converts the same structured evidence used in the report into an interactive interface. We evaluate BioInsight on standardized biomedical QA, challenging protein-function reasoning, and end-to-end biomedical evidence synthesis. Results show that BioInsight achieves best, and suggest that biomedical AI systems should move beyond text-only and static reports toward provenance-preserving, interactive evidence artifacts.

ShortcutsBench: A Large-Scale Real-world Benchmark for API-based Agents

Recent advancements in integrating large language models (LLMs) with application programming interfaces (APIs) have gained significant interest in both academia and industry. These API-based agents, leveraging the strong autonomy and planning capabilities of LLMs, can efficiently solve problems requiring multi-step actions. However, their ability to handle multi-dimensional difficulty levels, diverse task types, and real-world demands through APIs remains unknown. In this paper, we introduce \textsc{ShortcutsBench}, a large-scale benchmark for the comprehensive evaluation of API-based agents in solving tasks with varying levels of difficulty, diverse task types, and real-world demands. \textsc{ShortcutsBench} includes a wealth of real APIs from Apple Inc.'s operating systems, refined user queries from shortcuts, human-annotated high-quality action sequences from shortcut developers, and accurate parameter filling values about primitive parameter types, enum parameter types, outputs from previous actions, and parameters that need to request necessary information from the system or user. Our extensive evaluation of agents built with $5$ leading open-source (size >= 57B) and $4$ closed-source LLMs (e.g. Gemini-1.5-Pro and GPT-3.5) reveals significant limitations in handling complex queries related to API selection, parameter filling, and requesting necessary information from systems and users. These findings highlight the challenges that API-based agents face in effectively fulfilling real and complex user queries. All datasets, code, and experimental results will be available at \url{https://github.com/eachsheep/shortcutsbench}.

Prompting Large Language Models for Zero-shot Essay Scoring via Multi-trait Specialization

Advances in automated essay scoring (AES) have traditionally relied on labeled essays, requiring tremendous cost and expertise for their acquisition. Recently, large language models (LLMs) have achieved great success in various tasks, but their potential is less explored in AES. In this paper, we propose Multi Trait Specialization (MTS), a zero-shot prompting framework to elicit essay scoring capabilities in LLMs. Specifically, we leverage ChatGPT to decompose writing proficiency into distinct traits and generate scoring criteria for each trait. Then, an LLM is prompted to extract trait scores from several conversational rounds, each round scoring one of the traits based on the scoring criteria. Finally, we derive the overall score via trait averaging and min-max scaling. Experimental results on two benchmark datasets demonstrate that MTS consistently outperforms straightforward prompting (Vanilla) in average QWK across all LLMs and datasets, with maximum gains of 0.437 on TOEFL11 and 0.355 on ASAP. Additionally, with the help of MTS, the small-sized Llama2-13b-chat substantially outperforms ChatGPT, facilitating an effective deployment in real applications.