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High-definition spatial transcriptomics for in situ tissue profiling.

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-?m resolution, as demonstrated in mouse brain and primary breast cancer. This opens the way to high-resolution spatial analysis of cells and tissues.

SUBMITTER: Vickovic S

PROVIDER: S-EPMC6765407 | biostudies-literature | 2019 Oct

REPOSITORIES: biostudies-literature

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High-definition spatial transcriptomics for in situ tissue profiling.

Vickovic Sanja S Eraslan Gökcen G Salmén Fredrik F Klughammer Johanna J Stenbeck Linnea L Schapiro Denis D Äijö Tarmo T Bonneau Richard R Bergenstråhle Ludvig L Navarro José Fernandéz JF Gould Joshua J Griffin Gabriel K GK Borg Åke Å Ronaghi Mostafa M Frisén Jonas J Lundeberg Joakim J Regev Aviv A Ståhl Patrik L PL

Nature methods 20190909 10

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 ...[more]

PMID: 31501547

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High-density spatial transcriptomics arrays for in situ tissue profiling

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