SpatialDE: identification of spatially variable genes.
basic_science · Level V
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- Record sourced from PubMed, PMID 29553579.
- Also identified by DOI 10.1038/nmeth.4636 and PMC identifier 6350895.
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Abstract
Technological advances have made it possible to measure spatially resolved gene expression at high throughput. However, methods to analyze these data are not established. Here we describe SpatialDE, a statistical test to identify genes with spatial patterns of expression variation from multiplexed imaging or spatial RNA-sequencing data. SpatialDE also implements 'automatic expression histology', a spatial gene-clustering approach that enables expression-based tissue histology.
Medical subject headings
- Protein Transport
- Single-Cell Analysis