High-definition spatial transcriptomics for in situ tissue profiling

Sanja Vicković; Gökçen Eraslan; Fredrik Salmén; Johanna Klughammer; Linnea Stenbeck; Denis Schapiro; Tarmo Äijö; Richard Bonneau; Ludvig Bergenstråhle; José Fernández Navarro; Joshua Gould; Gabriel K. Griffin; Åke Borg; Mostafa Ronaghi; Jonas Frisén; Joakim Lundeberg; Aviv Regev; Patrik L. Ståhl

doi:10.1038/s41592-019-0548-y

Abstract

Spatial and molecular characteristics determine tissue function, yet high-resolution methods to capture both concurrently are lacking. Here, we developed high-definition spatial transcriptomics, which captures RNA from histological tissue sections on a dense, spatially barcoded bead array. Each experiment recovers several hundred thousand transcript-coupled spatial barcodes at 2-μm resolution, as demonstrated in mouse brain and primary breast cancer. This opens the way to high-resolution spatial analysis of cells and tissues.

Keywords

TranscriptomeIn situBiologyComputational biologyHigh resolutionRNAGene expression profilingProfiling (computer programming)Image resolutionGene expressionGeneComputer scienceGeneticsChemistryArtificial intelligenceGeology

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Publication Info

Year: 2019
Type: article
Volume: 16
Issue: 10
Pages: 987-990
Citations: 1116
Access: Closed

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APA Style

                            
                                
                                    Sanja Vicković, 
                                
                                    Gökçen Eraslan, 
                                
                                    Fredrik Salmén
                                
                                et al.
                            
                            (2019). 
                            High-definition spatial transcriptomics for in situ tissue profiling. 
                            Nature Methods
                            , 16
                            (10)
                            , 987-990.
                            https://doi.org/10.1038/s41592-019-0548-y
                        

Identifiers

DOI: 10.1038/s41592-019-0548-y