Repository files navigation awesome-foundation-model-multiomic-papers
[2024 Cell] Establishing a conceptual framework for holistic cell states and state transitions [paper]
[2025 bioRxiv] STEAMBOAT: Attention-based multiscale delineation of cellular interactions in tissues [paper]
[2025 Nature] Towards multimodal foundation models in molecular cell biology [paper]
[2024 Nature Communications] scPair: Boosting single cell multimodal analysis by leveraging implicit feature selection and single cell atlases [paper]
[2025 Nature Genetics; DNA -> RNA-seq] Predicting RNA-seq coverage from DNA sequence as a unifying model of gene regulation [paper]
[2025 Nature; scATAC-seq -> scRNA-seq] A foundation model of transcription across human cell types [paper]
[2024 bioRxiv; scATAC-seq] Multiomic foundation model predicts epigenetic regulation by zero-shot [paper]
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