mlsanityData to 14 Oct 2026

From Single to Multi-Agent Reasoning: Advancing GeneGPT for Genomics QA

arXiv 2601.10581 ↗First posted 15 Jan 2026cs.AI cs.IRcited by 0

On the map: LLM reasoning → Clinical and biomedical applications

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Abstract (arXiv)

Comprehending genomic information is essential for biomedical research, yet extracting data from complex distributed databases remains challenging. Large language models (LLMs) offer potential for genomic Question Answering (QA) but face limitations due to restricted access to domain-specific databases. GeneGPT is the current state-of-the-art system that enhances LLMs by utilizing specialized API calls, though it is constrained by rigid API dependencies and limited adaptability. We replicate GeneGPT and propose GenomAgent, a multi-agent framework that efficiently coordinates specialized agents for complex genomics queries. Evaluated on nine tasks from the GeneTuring benchmark, GenomAgent outperforms GeneGPT by 12% on average, and its flexible architecture extends beyond genomics to various scientific domains needing expert knowledge extraction.

Key facts. No citing papers in the map yet (data through 14 Oct 2026). Placed in Clinical and biomedical applications, one of 17 directions in LLM reasoning. Builds on 15 of its 21 references that are in the map. First posted on arXiv 15 Jan 2026.

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15 of 21 references.

References · 15

  1. 2020Language Models are Few-Shot Learnerscited by 32,419
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  10. 2024The Landscape of Emerging AI Agent Architectures for Reasoning, Planning, and Tool Calling: A Surveycited by 168
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  12. 2024Found in the Middle: Calibrating Positional Attention Bias Improves Long Context Utilizationcited by 101
3 more
  1. 2024LLM With Tools: A Surveycited by 61
  2. 2024Developing ChatGPT for Biology and Medicine: A Complete Review of Biomedical Question Answeringcited by 3
  3. 2025Beyond GeneGPT: A Multi-Agent Architecture with Open-Source LLMs for Enhanced Genomic Question Answeringcited by 3

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  1. 2025Nano Bio-Agents (NBA): Small Language Model Agents for Genomics
  2. 2025GenoMAS: A Multi-Agent Framework for Scientific Discovery via Code-Driven Gene Expression Analysis
  3. 2025BioAgents: Democratizing Bioinformatics Analysis with Multi-Agent Systems
  4. 2026Agentic Authoring of Interactive Multiview Visualizations in Genomics
  5. 2025BiomedSQL: Text-to-SQL for Scientific Reasoning on Biomedical Knowledge Bases
  6. 2026A Multi-Agent Framework for Medical AI: Leveraging Fine-Tuned GPT, LLaMA, and DeepSeek R1 for Evidence-Based and Bias-Aware Clinical Query Processing
  7. 2025BioVerge: A Comprehensive Benchmark and Study of Self-Evaluating Agents for Biomedical Hypothesis Generation
  8. 2026From Voting to Agent Collaboration: Answer-Type-Aware LLM Pipelines for BioASQ 14b