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UCE

Rosen Y, Brbic M, Roohani Y, Swanson K, Li Z, Leskovec J · 2023-11-28 · bioRxiv

Universal Cell Embedding — species-agnostic cell representation model for cross-species analysis.

Overview

The Universal Cell Embedding (UCE) model produces a unified embedding space for cells across species. It is trained using a protein language model (ESM) to map gene expression profiles to a shared latent space, enabling cross-species cell type comparisons.

Publication

Universal cell embeddings for cross-species single-cell analysis

Links

📄 Read Paper 💻 GitHub

Specifications

  • ArchitectureProtein language model + gene expression encoder
  • Pretraining DataCELLxGENE + cross-species scRNA-seq
  • ModalityscRNA-seq

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