Article

Benchmarking large language models for cell-free RNA diagnostic biomarker discovery

2025-08-24

Abstract excerpt

<h4>ABSTRACT</h4> Large-language models (LLMs) can parse vast amounts of data and generate executable code, positioning them as promising tools for the development of biomarkers and classifiers from high-throughput omics data. Here, we benchmarked six LLMs, OpenAI’s o3 and GPT-4o, Anthropic’s Claude Opus 4 and Claude 3.7 Sonnet, and Google’s Gemini 2.5 Pro and Gemini 2.0 Flash, for disease classification based on...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 14d975a5-7337-5774-bb9f-2cce0f6866f4
DOI: 10.1101/2025.08.20.671358

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Benchmarking large language models for cell-free RNA diagnostic biomarker discoveryDOI 10.1101/2025.08.20.671358Read

GEN-KnowRD: Reframing AI for Rare Disease RecognitionSemantic proximity Read

Reframing AI for Rare Disease RecognitionSemantic proximity Read

An Empirical Analysis of Fine-Tuning Large Language Models on Bioinformatics Literature: PRSGPT and BioStarsGPTSemantic proximity Read

A systematic review and meta-analysis of the Diagnostic Performance of Large Language Models in Rare DiseasesSemantic proximity Read

Metappuccino: Large Language Model-driven Reconstruction of Sequence Read Archive Metadata for Cancer ResearchSemantic proximity Read

Systematic benchmarking demonstrates large language models have not reached the diagnostic accuracy of traditional rare-disease decision support toolsSemantic proximity Read

Large Language Models Facilitate the Generation of Electronic Health Record Phenotyping AlgorithmsSemantic proximity Read

Language may be all omics needs: Harmonizing multimodal data for omics understanding with CellHermesSemantic proximity Read

Bioinformatics Copilot 1.0: A Large Language Model-powered Software for the Analysis of Transcriptomic DataSemantic proximity Read

Genomic Touchstone: Benchmarking Genomic Language Models in the Context of the Central DogmaSemantic proximity Read

Comparison of Large Language Models in Answering Immuno-Oncology Questions: A Cross-Sectional StudySemantic proximity Read

Decoding Rarity: Large Language Models in the Diagnosis of Rare DiseasesSemantic proximity Read