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High-definition spatial transcriptomics for in situ tissue profiling

Vickovic, Sanja ; Eraslan, Gökcen ; Salmén, Fredrik ; Klughammer, Johanna ; Stenbeck, Linnea ; Schapiro, Denis ; Äijö, Tarmo ; Bonneau, Richard ; Bergenstråhle, Ludvig and Navarro, José Fernandéz , et al. (2019) In Nature Methods 16(10). p.987-990
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.

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organization
publishing date
type
Contribution to journal
publication status
published
subject
in
Nature Methods
volume
16
issue
10
pages
4 pages
publisher
Nature Publishing Group
external identifiers
  • scopus:85072716890
  • pmid:31501547
ISSN
1548-7105
DOI
10.1038/s41592-019-0548-y
language
English
LU publication?
yes
id
42603f54-fcc1-48db-ae97-a9b25a752a2b
date added to LUP
2019-10-09 14:43:08
date last changed
2025-04-18 13:22:07
@article{42603f54-fcc1-48db-ae97-a9b25a752a2b,
  abstract     = {{<p>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.</p>}},
  author       = {{Vickovic, Sanja and Eraslan, Gökcen and Salmén, Fredrik and Klughammer, Johanna and Stenbeck, Linnea and Schapiro, Denis and Äijö, Tarmo and Bonneau, Richard and Bergenstråhle, Ludvig and Navarro, José Fernandéz and Gould, Joshua and Griffin, Gabriel K. and Borg, Åke and Ronaghi, Mostafa and Frisén, Jonas and Lundeberg, Joakim and Regev, Aviv and Ståhl, Patrik L.}},
  issn         = {{1548-7105}},
  language     = {{eng}},
  number       = {{10}},
  pages        = {{987--990}},
  publisher    = {{Nature Publishing Group}},
  series       = {{Nature Methods}},
  title        = {{High-definition spatial transcriptomics for in situ tissue profiling}},
  url          = {{http://dx.doi.org/10.1038/s41592-019-0548-y}},
  doi          = {{10.1038/s41592-019-0548-y}},
  volume       = {{16}},
  year         = {{2019}},
}