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SATURN

Rosen Y, Brbic M, Swanson K, Roohani Y, Leskovec J · 2023-11-01 · Nature

Cross-species single-cell foundation model using protein language models.

Overview

SATURN combines scRNA-seq data with protein language models (ProtT5) to create species-agnostic cell embeddings. It maps genes to protein embeddings via orthology, enabling cross-species cell type annotation without shared gene symbols.

Publication

Cross-species single-cell foundation model using protein language models

Links

📄 Read Paper 💻 GitHub

Specifications

  • ArchitectureProtein language model (ProtT5) + autoencoder
  • Pretraining DataTabula Sapiens + cross-species scRNA-seq
  • ModalityscRNA-seq

Tags

Cross-species Foundation Model Gene Expression