Assessing GPT-4 for cell type annotation in single-cell RNA-seq analysis.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 38528186.
- Also identified by DOI 10.1038/s41592-024-02235-4 and PMC identifier 11310073.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
Here we demonstrate that the large language model GPT-4 can accurately annotate cell types using marker gene information in single-cell RNA sequencing analysis. When evaluated across hundreds of tissue and cell types, GPT-4 generates cell type annotations exhibiting strong concordance with manual annotations. This capability can considerably reduce the effort and expertise required for cell type annotation. Additionally, we have developed an R software package GPTCelltype for GPT-4's automated cell type annotation.
Medical subject headings
- Single-Cell Gene Expression Analysis
- Software