High-definition spatial transcriptomics for in situ tissue profiling

Research output: Contribution to journalArticle


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.


  • Sanja Vickovic
  • Gökcen Eraslan
  • Fredrik Salmén
  • Johanna Klughammer
  • Linnea Stenbeck
  • Denis Schapiro
  • Tarmo Äijö
  • Richard Bonneau
  • Ludvig Bergenstråhle
  • José Fernandéz Navarro
  • Joshua Gould
  • Gabriel K. Griffin
  • Åke Borg
  • Mostafa Ronaghi
  • Jonas Frisén
  • Joakim Lundeberg
  • Aviv Regev
  • Patrik L. Ståhl
External organisations
  • Broad Institute
  • KTH Royal Institute of Technology
  • New York University
  • Karolinska Institutet
  • Stanford University
  • Massachusetts Institute of Technology
  • Harvard University
  • Flatiron Institute
  • Brigham and Women's Hospital, Boston
  • Illumina, Inc
Research areas and keywords

Subject classification (UKÄ) – MANDATORY

  • Medical Laboratory and Measurements Technologies
Original languageEnglish
Pages (from-to)987-990
Number of pages4
JournalNature Methods
Issue number10
Publication statusPublished - 2019
Publication categoryResearch