SpatialDE: identification of spatially variable genes

被引：347

作者：

Svensson, Valentine ^{[1
,2
]}

Teichmann, Sarah A. ^{[1
,3
]}

Stegle, Oliver ^{[2
,4
]}

机构：

[1] Wellcome Trust Sanger Inst, Hinxton, England

[2] European Bioinformat Inst, European Mol Biol Lab, Hinxton, England

[3] Univ Cambridge, Cavendish Lab, Condensed Matter Theory Grp, Cambridge, England

[4] European Mol Biol Lab, Genome Biol Unit, Heidelberg, Germany

来源：

NATURE METHODS | 2018年 / 15卷 / 05期

基金：

英国惠康基金;

关键词：

RNA-SEQ DATA; EXPRESSION; TISSUE; REVEALS;

D O I：

10.1038/nmeth.4636

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

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.

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页码：343 / +

页数：6

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