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High-definition spatial transcriptomics for in situ tissue profiling.
Metadata
Journalnature methods30.822Date
2019 Sep 09
a year ago
Publication Type
Research Support, Non-U.S. Gov't
Research Support, N.I.H., Extramural
Journal Article
Volume
2019-10 / 16 : 987-990
Author
Vickovic S 1, 2, Eraslan G 3, Salmén F 4, Klughammer J 3, Stenbeck L 4, Schapiro D 3, 5, Äijö T 6, Bonneau R 7, 8, Bergenstråhle L 4, Navarro JF 4, Gould J 3, Griffin GK 3, 8, Borg Å 9, Ronaghi M 10, Frisén J 11, Lundeberg J 12, 13, Regev A 3, 14, Ståhl PL 4
Affiliation
  • 2. Science for Life Laboratory, Department of Gene Technology, KTH Royal Institute of Technology, Stockholm, Sweden. [email protected]
  • 3. Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
  • 4. Science for Life Laboratory, Department of Gene Technology, KTH Royal Institute of Technology, Stockholm, Sweden.
  • 5. Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, USA.
  • 6. Center for Computational Biology, Flatiron Institute, New York, NY, USA.
  • 7. Center for Data Science, New York University, New York, NY, USA.
  • 8. Department of Pathology, Brigham and Women's Hospital, Boston, MA, USA.
  • 9. Division of Oncology and Pathology, Department of Clinical Sciences Lund, Lund University, Lund, Sweden.
  • 10. Illumina, Inc., San Diego, CA, USA.
  • 11. Department of Cell and Molecular Biology, Karolinska Institute, Stockholm, Sweden.
  • 12. Science for Life Laboratory, Department of Gene Technology, KTH Royal Institute of Technology, Stockholm, Sweden. [email protected]
  • 13. Department of Bioengineering, Stanford University, Stanford, CA, USA. [email protected]
  • 14. Howard Hughes Medical Institute and Koch Institute for Integrative Cancer Research, Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.
Doi
PMIDMESH
Animals
Breast Neoplasms
Female
Gene Expression Profiling
Humans
Mice
Olfactory Bulb
Sequence Analysis, RNA
Single-Cell Analysis
Tissue Array Analysis
Transcriptome
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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30.8
Nat Methodsnature methods
Metadata
LocationUnited States
FromNATURE PUBLISHING GROUP

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