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SpatialDE: identification of spatially variable genes.

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.

SUBMITTER: Svensson V

PROVIDER: S-EPMC6350895 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature

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SpatialDE: identification of spatially variable genes.

Svensson Valentine V Teichmann Sarah A SA Stegle Oliver O

Nature methods 20180319 5

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. ...[more]

PMID: 29553579

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