scpFormer is a panel-agnostic transformer model that creates unified cell representations from variable single-cell proteomic panels via continuous embeddings and ESM integration, supporting batch integration, clustering, in silico expansion, and transfer to bulk tasks.
A.et al.Spatial single-cell mass spectrometry defines zonation of the hepatocyte proteome.Nature Methods20, 1530–1536 (2023)
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scpFormer: A Foundation Model for Unified Representation and Integration of the Single-Cell Proteomics
scpFormer is a panel-agnostic transformer model that creates unified cell representations from variable single-cell proteomic panels via continuous embeddings and ESM integration, supporting batch integration, clustering, in silico expansion, and transfer to bulk tasks.