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Add CASSIA (Nature Communications 2025) to Cell Type Annotation #28

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Add CASSIA (Nature Communications 2025) to Cell Type Annotation #28

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ElliotXie Apr 21, 2025
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Update CASSIA citation to Nature Communications (Cell Type Annotation)
ElliotXie Jun 20, 2026
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Expand Up @@ -453,6 +453,8 @@ contrastive fine-tuning** [[paper]](https://www.biorxiv.org/content/10.1101/2021
1. [2019 Science] **Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution** [[paper]](https://doi.org/10.1126/science.aaw1219)

## Cell Type Annotation

1. [2025 Nature Communications] **CASSIA: a multi-agent large language model for automated and interpretable cell annotation** [[paper]](https://www.nature.com/articles/s41467-025-67084-x) [[code]](https://github.com/ElliotXie/CASSIA)
1. [2025 BioRxiv] **Large Language Model Consensus Substantially Improves the Cell Type Annotation Accuracy for scRNA-seq Data** [[paper]](https://www.biorxiv.org/content/10.1101/2025.04.10.647852v1) [[code]](https://github.com/cafferychen777/mLLMCelltype)
1. [2023 biorxiv] **Scaling cross-tissue single-cell annotation models** [[paper]](https://www.biorxiv.org/content/10.1101/2023.10.07.561331v1.full.pdf)
1. [2023 Nature Methods] **Multi-layered maps of neuropil with segmentation-guided contrastive learning** [[paper]](https://www.nature.com/articles/s41592-023-02059-8)
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