Nicheformer: a foundation model for single-cell and spatial omics

Abstract excerpt

Tissue makeup relies fundamentally on the cellular microenvironment. Spatial single-cell genomics allows probing the underlying cellular interactions in an unbiased, scalable fashion. To learn a unified cell representation that accounts for local dependencies in the cellular microenvironment, we propose Nicheformer, a transformer-based foundation model that combines human and mouse dissociated single-cell and targ...

Topics

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• Brain
• COVID-19
• Mice
• Neural Networks, Computer
• Sequence Analysis, RNA
• Single-Cell Analysis
• Single-Cell Gene Expression Analysis
• Transcriptome

Identifiers and source

Literature Corpus work

6b7265c5-b530-57a8-a922-5c7091e483fb

DOI

10.1101/2024.04.15.589472