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Nature Methods
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Last updated about 14 hours ago
Improved reconstruction of single-cell developmental potential with CytoTRACE 2
about 14 hours ago
Nature Methods, Published online: 27 October 2025; doi:10.1038/s41592-025-02857-2CytoTRACE 2 is an interpretable...
PHLOWER leverages single-cell multimodal data to infer complex, multi-branching cell differentiation trajectories
5 days ago
Nature Methods, Published online: 23 October 2025; doi:10.1038/s41592-025-02870-5PHLOWER leverages single-cell multimodal data...
The Hodge Laplacian advances inference of single-cell trajectories
5 days ago
Nature Methods, Published online: 23 October 2025; doi:10.1038/s41592-025-02858-1A recently proposed Hodge Laplacian...
scooby: modeling multimodal genomic profiles from DNA sequence at single-cell resolution
6 days ago
Nature Methods, Published online: 22 October 2025; doi:10.1038/s41592-025-02854-5scooby achieves DNA sequence-based single-cell...
CELLECT: contrastive embedding learning for large-scale efficient cell tracking
8 days ago
Nature Methods, Published online: 20 October 2025; doi:10.1038/s41592-025-02886-xCELLECT learns contrastive embeddings to...
gReLU: a comprehensive framework for DNA sequence modeling and design
13 days ago
Nature Methods, Published online: 15 October 2025; doi:10.1038/s41592-025-02868-zgReLU advances deep-learning-based modeling and...
Deep generative modeling of sample-level heterogeneity in single-cell genomics
15 days ago
Nature Methods, Published online: 13 October 2025; doi:10.1038/s41592-025-02808-xMrVI, based on deep generative...
Multitask benchmarking of single-cell multimodal omics integration methods
15 days ago
Nature Methods, Published online: 13 October 2025; doi:10.1038/s41592-025-02856-3This Registered Report compares computational...
Deciphering single-cell epigenomic language with a foundation model
18 days ago
Nature Methods, Published online: 10 October 2025; doi:10.1038/s41592-025-02851-8EpiAgent, a transformer-based foundation model...
Enhancing prime editing via AI-guided binder design
18 days ago
Nature Methods, Published online: 09 October 2025; doi:10.1038/s41592-025-02872-3AI-designed binders can enhance prime...
Retracing tumor evolution
18 days ago
Nature Methods, Published online: 09 October 2025; doi:10.1038/s41592-025-02876-zRetracing tumor evolution
Mouse lemurs
18 days ago
Nature Methods, Published online: 09 October 2025; doi:10.1038/s41592-025-02852-7Studying the gray mouse lemur...