Single-Cell Model Hub

A curated collection of foundation models, virtual cells, and AI systems for single-cell biology — papers, code, and resources.

All Models Foundation Model Geneformer-like Virtual Cell Multi-modal Spatial Perturbation Generative Other
#Cell Atlas #Cross-species #Foundation Model #GPT #Gene Expression #Geneformer #Generative #Masked Modeling #Multi-omics #Perturbation #Spatial #Transformer #Virtual Cell #scBERT #scFoundation #scGPT #scRNA-seq

#scRNA-seq

2
Foundation Model

UCE

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

2023 · 11 Paper → GitHub →
Cross-species Foundation Model Gene Expression scRNA-seq
Foundation Model

CELLxGENE Census Models

Foundation models from CZI, trained on CELLxGENE Census data (50M+ cells).

2023 · 07 Paper → GitHub →
Cell Atlas Foundation Model Gene Expression scRNA-seq