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April 21, 2026Briefings in Bioinformatics2 citationsOpen Access

AICellType: Large Language Model Platform for Cell Type Annotation

AICellType: a large language model-based platform for accurate cell type annotation

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Authors

CCChuxing ChengSFShuo FangQZQi Zuo

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Overview

Benchmarking large language models improves cell type annotation in transcriptomics, suggesting enhanced biological insights.

Key Points

  • The aim is to improve cell type annotation by leveraging large language models for better adaptability and performance across various biological contexts.
  • Benchmarking 79 large language models across 1130 datasets
  • Using an evaluation framework that incorporates ontology structure and semantic reasoning
  • Developing an open-source R package and web platform for user-friendly access
  • Claude 3.5 Sonnet demonstrated the best overall performance with a weighted accuracy of 76%
  • AICellType enables flexible deployment via OpenRouter or custom APIs
  • The platform supports diverse species, tissues, and integrates with Seurat workflows

Cite This Study

Cheng et al. (2026) studied this question.

synapsesocial.com/papers/69e7143fcb99343efc98d93ehttps://doi.org/10.1093/bib/bbag151
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